This run was generated using rMAP version 1.0 performed on 2021-11-07… Thank you for using this pipeline!!


Assembly summary statistics


Field Description
SampleID Name of the sample
TrimReads Total number of reads after quality filtering
MeanReadLen Average read length after quality filtering
Contigs Number of contigs of the draft genome (>200bp)
GenomeLength Length (bp) of the draft genome
LargestContig Length (bp) of the largest contig in the genome
N50 Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly
GC-Content GC content (%) of the draft genome
Depth Number of times each nucleotide position in the draft genome has a read that aligns to that position


SampleID TrimReads MeanReadLen Contigs GenomeLength LargestContig N50 GC-Content Depth
ID014CT 546057 134 661 5309227 90580 17813 57.21 13X
ID025 492464 131 1299 3803527 74957 3998 54.14 16X
ID037 341830 135 735 5303150 89360 15139 56.70 8X
ID06CT 581718 134 583 5294842 168845 18875 56.64 14X
ID08CT 405298 135 435 5544024 237668 29102 56.90 9X
ID125 370827 134 555 5500018 134700 21151 56.36 9X
ID135 369111 134 351 5554277 169832 32960 56.74 8X
ID149 484315 133 196 4794798 156387 60435 56.10 13X
ID152 331509 135 215 4818218 164294 52213 55.97 9X
ID163I 364263 132 3164 10230147 46076 5725 53.82 4X
ID187CT 256799 136 598 5138613 95472 18311 57.07 6X
ID188 495872 131 389 5322876 156359 31212 56.94 12X
ID198 462816 129 671 5345362 120013 17862 56.68 11X
ID260 447579 129 538 5379369 91680 21586 57.33 10X
ORTHO042EI 367539 133 310 4763582 131655 35130 56.01 10X
ORTHO053E 328663 136 513 5258666 83152 21191 57.30 8X
ORTHO066E 543399 132 1429 9788292 100684 13636 56.56 7X
ORTHO067E 533801 132 693 5188303 105830 15133 56.60 13X
ORTHO08HWII 44345 130 1008 5564112 69234 10907 56.35 1X

Select the parameter

Number of reads

Average number of reads per sample = 408853

Average read length

Average read length per sample = 133 bp

Number of contigs

Average number of contigs per sample = 755

Genome length

Average genome length per sample = 5679021 bp

Largest contig length

Average largest contig length per sample = 120357 bp

N50

Average N50 per sample = 23283 bp

GC content

Average GC content per sample = 56.391%

Sequencing depth

Average sequencing depth = 9.526X

Back to index

SNP-variant calling


Field Description
GenomePosition Position in the genome where SNP is found
Type Nature of the SNP identified (Only ‘True’ SNPs are shown by default)
ReferenceAllele Allele found in the reference genome
AlternateAllele Allele found in the genome of interest forming the SNP
Consequence Amino acid alterations caused by the SNP
AffectedGene The tartget gene affected by the SNP
Product The outcome from the presence of the SNP


Select the sample

ID014CT
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146714 snp G A missense_variant c.925G>A p.Asp309Asn acriflavine resistance protein E
146742 snp C A missense_variant c.953C>A p.Ala318Asp acriflavine resistance protein E
146754 snp A C missense_variant c.965A>C p.Glu322Ala acriflavine resistance protein E
146899 snp C A missense_variant c.1110C>A p.Asn370Lys acriflavine resistance protein E
188602 snp G A missense_variant c.208G>A p.Val70Ile emrD multidrug resistance protein D
189280 snp A G missense_variant c.886A>G p.Ile296Val emrD multidrug resistance protein D
189473 snp C A missense_variant c.1079C>A p.Thr360Asn emrD multidrug resistance protein D
338901 snp G A missense_variant c.46G>A p.Ala16Thr 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339086 snp G T missense_variant c.231G>T p.Glu77Asp 6-N-hydroxylaminopurine resistance protein
339237 snp G T missense_variant c.382G>T p.Ala128Ser 6-N-hydroxylaminopurine resistance protein
339359 snp T G missense_variant c.504T>G p.Asp168Glu 6-N-hydroxylaminopurine resistance protein
339395 snp G T missense_variant c.540G>T p.Gln180His 6-N-hydroxylaminopurine resistance protein
442554 snp C T missense_variant c.397G>A p.Val133Met chloramphenical resistance permease RarD
513223 snp G C missense_variant c.407C>G p.Ala136Gly zraP zinc resistance protein
513290 snp T G missense_variant c.340A>C p.Ile114Leu zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513522 snp C G missense_variant c.108G>C p.Met36Ile zraP zinc resistance protein
513563 snp C T missense_variant c.67G>A p.Ala23Thr zraP zinc resistance protein
513571 snp G C missense_variant c.59C>G p.Ala20Gly zraP zinc resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp copper resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr copper resistance protein
884975 snp T G missense_variant c.454A>C p.Lys152Gln copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418452 snp C T missense_variant c.406G>A p.Ala136Thr oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508432 snp T A missense_variant c.781A>T p.Thr261Ser Fosmidomycin resistance protein
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1509185 snp A C missense_variant c.28T>G p.Leu10Val Fosmidomycin resistance protein
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
2482402 snp G A missense_variant c.277G>A p.Val93Ile quinolone resistance protein
2482835 snp C G missense_variant c.710C>G p.Thr237Ser quinolone resistance protein
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G A missense_variant c.8G>A p.Ser3Asn glyoxalase/bleomycin resistance protein/dioxygenase
3048036 snp A T missense_variant c.1252T>A p.Ser418Thr methyl viologen resistance protein SmvA
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3048690 snp C T missense_variant c.598G>A p.Val200Ile methyl viologen resistance protein SmvA
3048718 snp T G missense_variant c.570A>C p.Glu190Asp methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117314 snp G C missense_variant c.353C>G p.Ala118Gly tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117483 snp G C missense_variant c.184C>G p.Pro62Ala tellurite resistance protein TehB
3117507 snp C T missense_variant c.160G>A p.Ala54Thr tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3961497 snp T A missense_variant c.40T>A p.Leu14Ile phage resistance protein
3961797 snp A G missense_variant c.340A>G p.Asn114Asp phage resistance protein
3961810 snp G C missense_variant c.353G>C p.Ser118Thr phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
3962100 snp G A missense_variant c.643G>A p.Ala215Thr phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962466 snp A C missense_variant c.1009A>C p.Ser337Arg phage resistance protein
4441278 snp C G missense_variant c.38C>G p.Thr13Ser acriflavin resistance protein AcrA
4442311 snp T G missense_variant c.1071T>G p.Asn357Lys acriflavin resistance protein AcrA
4442366 snp C G missense_variant c.1126C>G p.Pro376Ala acriflavin resistance protein AcrA
4442396 snp T C missense_variant c.1156T>C p.Ser386Pro acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4794098 snp A G missense_variant c.527A>G p.Lys176Arg multidrug resistance protein MdtN
4794154 snp G A missense_variant c.583G>A p.Val195Ile multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A C missense_variant c.140A>C p.Asn47Thr copper resistance protein
5012908 snp C A missense_variant c.16C>A p.His6Asn acid-resistance membrane protein
5013217 snp A T missense_variant c.325A>T p.Ile109Phe acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013461 snp A G missense_variant c.569A>G p.Gln190Arg acid-resistance membrane protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ID025
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146849 snp G A missense_variant c.1060G>A p.Gly354Ser acriflavine resistance protein E
339062 snp C G missense_variant c.207C>G p.Ile69Met 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339261 snp A G missense_variant c.406A>G p.Met136Val 6-N-hydroxylaminopurine resistance protein
513290 snp T C missense_variant c.340A>G p.Ile114Val zraP zinc resistance protein
513383 snp C T missense_variant c.247G>A p.Ala83Thr zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513602 snp C T missense_variant c.28G>A p.Ala10Thr zraP zinc resistance protein
513613 snp G T missense_variant c.17C>A p.Thr6Asn zraP zinc resistance protein
884572 snp C T missense_variant c.857G>A p.Ser286Asn copper resistance protein
884579 snp G T missense_variant c.850C>A p.Arg284Ser copper resistance protein
884613 snp G T missense_variant c.816C>A p.Ser272Arg copper resistance protein
885380 snp G C missense_variant c.49C>G p.Leu17Val copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1735855 snp A C missense_variant c.127T>G p.Leu43Val camphor resistance protein CrcB
1735962 snp G A missense_variant c.20C>T p.Ala7Val camphor resistance protein CrcB
2210268 snp A T missense_variant c.812T>A p.Phe271Tyr multidrug resistance protein MdtH
2245680 snp A T missense_variant c.197A>T p.Tyr66Phe multiple stress resistance protein BhsA
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala tellurite resistance protein TehB
3117395 snp C G missense_variant c.272G>C p.Ser91Thr tellurite resistance protein TehB
3117433 snp A T missense_variant c.234T>A p.Asp78Glu tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3117659 snp T G missense_variant c.8A>C p.Lys3Thr tellurite resistance protein TehB
3159943 snp A G missense_variant c.13A>G p.Thr5Ala fusaric acid resistance protein
3159958 snp G A missense_variant c.28G>A p.Ala10Thr fusaric acid resistance protein
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3191119 snp C G missense_variant c.66C>G p.Asp22Glu bleomycin resistance protein
3191197 snp C G missense_variant c.144C>G p.Asp48Glu bleomycin resistance protein
3191241 snp A C missense_variant c.188A>C p.Gln63Pro bleomycin resistance protein
3191318 snp A C missense_variant c.265A>C p.Ile89Leu bleomycin resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3777872 snp G A missense_variant c.104C>T p.Ala35Val tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921844 snp T C missense_variant c.334A>G p.Ile112Val multidrug resistance outer membrane protein MdtQ
3961492 snp C T missense_variant c.35C>T p.Thr12Ile phage resistance protein
3961509 snp A T missense_variant c.52A>T p.Ser18Cys phage resistance protein
3961849 snp C A missense_variant c.392C>A p.Ala131Asp phage resistance protein
3962026 snp A G missense_variant c.569A>G p.Asp190Gly phage resistance protein
3962101 snp C T missense_variant c.644C>T p.Ala215Val phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962657 snp G C missense_variant c.1200G>C p.Met400Ile phage resistance protein
4442396 snp T A missense_variant c.1156T>A p.Ser386Thr acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4492965 snp C A missense_variant c.1258C>A p.Leu420Met emrB multidrug resistance protein B
4493045 snp A G missense_variant c.1338A>G p.Ile446Met emrB multidrug resistance protein B
4493154 snp A G missense_variant c.1447A>G p.Ile483Val emrB multidrug resistance protein B
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
5012938 snp G A missense_variant c.46G>A p.Val16Ile acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013526 snp T C missense_variant c.32T>C p.Val11Ala acid-resistance protein
5013573 snp G C missense_variant c.79G>C p.Glu27Gln acid-resistance protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ID037
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
145977 snp C A missense_variant c.188C>A p.Pro63Gln NA acriflavine resistance protein E
146127 snp T C missense_variant c.338T>C p.Val113Ala NA acriflavine resistance protein E
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
339238 snp C T missense_variant c.383C>T p.Ala128Val NA 6-N-hydroxylaminopurine resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
885327 snp G T missense_variant c.102C>A p.His34Gln NA copper resistance protein
1508402 snp C T missense_variant c.811G>A p.Ala271Thr NA Fosmidomycin resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117474 snp C G missense_variant c.193G>C p.Val65Leu NA tellurite resistance protein TehB
3159958 snp G A missense_variant c.28G>A p.Ala10Thr NA fusaric acid resistance protein
3160246 snp C T missense_variant c.316C>T p.Leu106Phe NA fusaric acid resistance protein
3191223 snp C G missense_variant c.170C>G p.Thr57Ser NA bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3226295 snp G A missense_variant c.16C>T p.Arg6Cys NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile NA copper resistance protein
5013106 snp C A missense_variant c.214C>A p.Arg72Ser NA acid-resistance membrane protein
5013455 snp A G missense_variant c.563A>G p.His188Arg NA acid-resistance membrane protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu NA acid-resistance membrane protein
ID06CT
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
884204 snp C G missense_variant c.1225G>C p.Ala409Pro NA copper resistance protein
884338 snp A G missense_variant c.1091T>C p.Val364Ala NA copper resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp NA copper resistance protein
884645 snp C T missense_variant c.784G>A p.Ala262Thr NA copper resistance protein
884884 snp G T missense_variant c.545C>A p.Ala182Asp NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
885217 snp T A missense_variant c.212A>T p.Asp71Val NA copper resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2482969 snp C A missense_variant c.844C>A p.Leu282Ile NA quinolone resistance protein
3032781 snp A T missense_variant c.6A>T p.Gln2His NA glyoxalase/bleomycin resistance protein/dioxygenase
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117207 snp C T missense_variant c.460G>A p.Asp154Asn NA tellurite resistance protein TehB
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3225725 snp T G missense_variant c.586A>C p.Asn196His NA bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
3962603 snp T G missense_variant c.1146T>G p.Phe382Leu NA phage resistance protein
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu NA acid-resistance membrane protein
5013702 snp C T missense_variant c.208C>T p.His70Tyr NA acid-resistance protein
ID08CT
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
188902 snp G C missense_variant c.508G>C p.Val170Leu emrD multidrug resistance protein D
442551 snp T G missense_variant c.400A>C p.Ile134Leu chloramphenical resistance permease RarD
513563 snp C A missense_variant c.67G>T p.Ala23Ser zraP zinc resistance protein
2482423 snp G A missense_variant c.298G>A p.Val100Ile quinolone resistance protein
2483368 snp G A missense_variant c.1243G>A p.Gly415Ser quinolone resistance protein
3048149 snp G A missense_variant c.1139C>T p.Ala380Val methyl viologen resistance protein SmvA
3117128 snp A G missense_variant c.539T>C p.Val180Ala tellurite resistance protein TehB
3117207 snp C T missense_variant c.460G>A p.Asp154Asn tellurite resistance protein TehB
3160355 snp G A missense_variant c.425G>A p.Ser142Asn fusaric acid resistance protein
3191246 snp A T missense_variant c.193A>T p.Ser65Cys bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile copper resistance protein
ID125
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
885061 snp T A missense_variant c.368A>T p.Tyr123Phe NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2482969 snp C A missense_variant c.844C>A p.Leu282Ile NA quinolone resistance protein
3032781 snp A T missense_variant c.6A>T p.Gln2His NA glyoxalase/bleomycin resistance protein/dioxygenase
3032816 snp C T missense_variant c.41C>T p.Thr14Ile NA glyoxalase/bleomycin resistance protein/dioxygenase
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117207 snp C T missense_variant c.460G>A p.Asp154Asn NA tellurite resistance protein TehB
3191385 snp A T missense_variant c.332A>T p.Tyr111Phe NA bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3225725 snp T G missense_variant c.586A>C p.Asn196His NA bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3921997 snp C T missense_variant c.181G>A p.Asp61Asn NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
5013128 snp G A missense_variant c.236G>A p.Arg79His NA acid-resistance membrane protein
ID135
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338902 snp C T missense_variant c.47C>T p.Ala16Val NA 6-N-hydroxylaminopurine resistance protein
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
442551 snp T G missense_variant c.400A>C p.Ile134Leu NA chloramphenical resistance permease RarD
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
885415 snp G T missense_variant c.14C>A p.Thr5Lys NA copper resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2482762 snp G A missense_variant c.637G>A p.Val213Ile NA quinolone resistance protein
2483422 snp C T missense_variant c.1297C>T p.His433Tyr NA quinolone resistance protein
3048149 snp G A missense_variant c.1139C>T p.Ala380Val NA methyl viologen resistance protein SmvA
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3226295 snp G A missense_variant c.16C>T p.Arg6Cys NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921060 snp G A missense_variant c.1118C>T p.Ala373Val NA multidrug resistance outer membrane protein MdtQ
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3961836 snp A G missense_variant c.379A>G p.Ser127Gly NA phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
3962998 snp C T missense_variant c.1541C>T p.Ala514Val NA phage resistance protein
4793837 snp A T missense_variant c.266A>T p.Asp89Val NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile NA copper resistance protein
ID149
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
189023 snp A C missense_variant c.629A>C p.Asn210Thr emrD multidrug resistance protein D
189094 snp A C missense_variant c.700A>C p.Met234Leu emrD multidrug resistance protein D
189232 snp T A missense_variant c.838T>A p.Cys280Ser emrD multidrug resistance protein D
189440 snp T C missense_variant c.1046T>C p.Val349Ala emrD multidrug resistance protein D
442359 snp T C missense_variant c.592A>G p.Thr198Ala chloramphenical resistance permease RarD
442560 snp G C missense_variant c.391C>G p.Leu131Val chloramphenical resistance permease RarD
1508288 snp C T missense_variant c.925G>A p.Val309Ile Fosmidomycin resistance protein
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
1508513 snp T C missense_variant c.700A>G p.Met234Val Fosmidomycin resistance protein
4441655 snp C G missense_variant c.415C>G p.Leu139Val acriflavin resistance protein AcrA
4441943 snp C A missense_variant c.703C>A p.Arg235Ser acriflavin resistance protein AcrA
4442099 snp T G missense_variant c.859T>G p.Ser287Ala acriflavin resistance protein AcrA
4442109 snp T A missense_variant c.869T>A p.Leu290Gln acriflavin resistance protein AcrA
4442396 snp T G missense_variant c.1156T>G p.Ser386Ala acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
4492119 snp A G missense_variant c.412A>G p.Ile138Val emrB multidrug resistance protein B
ID152
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
189023 snp A C missense_variant c.629A>C p.Asn210Thr emrD multidrug resistance protein D
189094 snp A C missense_variant c.700A>C p.Met234Leu emrD multidrug resistance protein D
189232 snp T A missense_variant c.838T>A p.Cys280Ser emrD multidrug resistance protein D
442359 snp T C missense_variant c.592A>G p.Thr198Ala chloramphenical resistance permease RarD
442560 snp G C missense_variant c.391C>G p.Leu131Val chloramphenical resistance permease RarD
1508288 snp C T missense_variant c.925G>A p.Val309Ile Fosmidomycin resistance protein
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
1508513 snp T C missense_variant c.700A>G p.Met234Val Fosmidomycin resistance protein
4441943 snp C A missense_variant c.703C>A p.Arg235Ser acriflavin resistance protein AcrA
4442099 snp T G missense_variant c.859T>G p.Ser287Ala acriflavin resistance protein AcrA
4442109 snp T A missense_variant c.869T>A p.Leu290Gln acriflavin resistance protein AcrA
4442396 snp T G missense_variant c.1156T>G p.Ser386Ala acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
4492119 snp A G missense_variant c.412A>G p.Ile138Val emrB multidrug resistance protein B
ID163I
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146859 snp C T missense_variant c.1070C>T p.Ala357Val acriflavine resistance protein E
338880 snp G A missense_variant c.25G>A p.Val9Ile 6-N-hydroxylaminopurine resistance protein
338982 snp C G missense_variant c.127C>G p.Gln43Glu 6-N-hydroxylaminopurine resistance protein
339179 snp G C missense_variant c.324G>C p.Glu108Asp 6-N-hydroxylaminopurine resistance protein
339336 snp G A missense_variant c.481G>A p.Glu161Lys 6-N-hydroxylaminopurine resistance protein
339505 snp G A missense_variant c.650G>A p.Ser217Asn 6-N-hydroxylaminopurine resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513482 snp C T missense_variant c.148G>A p.Ala50Thr zraP zinc resistance protein
513602 snp C T missense_variant c.28G>A p.Ala10Thr zraP zinc resistance protein
884186 snp A T missense_variant c.1243T>A p.Ser415Thr copper resistance protein
884234 snp C A missense_variant c.1195G>T p.Ala399Ser copper resistance protein
884572 snp C T missense_variant c.857G>A p.Ser286Asn copper resistance protein
884579 snp G T missense_variant c.850C>A p.Arg284Ser copper resistance protein
885109 snp G C missense_variant c.320C>G p.Thr107Ser copper resistance protein
885326 snp A C missense_variant c.103T>G p.Ser35Ala copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1735855 snp A C missense_variant c.127T>G p.Leu43Val camphor resistance protein CrcB
2210353 snp C T missense_variant c.727G>A p.Ala243Thr multidrug resistance protein MdtH
2482844 snp C T missense_variant c.719C>T p.Ala240Val quinolone resistance protein
2483143 snp G A missense_variant c.1018G>A p.Ala340Thr quinolone resistance protein
2483228 snp C G missense_variant c.1103C>G p.Ala368Gly quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G C missense_variant c.8G>C p.Ser3Thr glyoxalase/bleomycin resistance protein/dioxygenase
3047958 snp A T missense_variant c.1330T>A p.Ser444Thr methyl viologen resistance protein SmvA
3048008 snp C T missense_variant c.1280G>A p.Gly427Asp methyl viologen resistance protein SmvA
3048029 snp G A missense_variant c.1259C>T p.Ala420Val methyl viologen resistance protein SmvA
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048548 snp G A missense_variant c.740C>T p.Ala247Val methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117424 snp T A missense_variant c.243A>T p.Gln81His tellurite resistance protein TehB
3117433 snp A T missense_variant c.234T>A p.Asp78Glu tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3159958 snp G A missense_variant c.28G>A p.Ala10Thr fusaric acid resistance protein
3160224 snp C G missense_variant c.294C>G p.Phe98Leu fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161458 snp G A missense_variant c.1528G>A p.Val510Ile fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191241 snp A C missense_variant c.188A>C p.Gln63Pro bleomycin resistance protein
3191318 snp A C missense_variant c.265A>C p.Ile89Leu bleomycin resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921352 snp T C missense_variant c.826A>G p.Ser276Gly multidrug resistance outer membrane protein MdtQ
3921844 snp T C missense_variant c.334A>G p.Ile112Val multidrug resistance outer membrane protein MdtQ
3922046 snp A C missense_variant c.132T>G p.Asp44Glu multidrug resistance outer membrane protein MdtQ
3922096 snp C T missense_variant c.82G>A p.Val28Ile multidrug resistance outer membrane protein MdtQ
3961490 snp A C missense_variant c.33A>C p.Lys11Asn phage resistance protein
3961501 snp C T missense_variant c.44C>T p.Thr15Ile phage resistance protein
3961509 snp A T missense_variant c.52A>T p.Ser18Cys phage resistance protein
3961591 snp C T missense_variant c.134C>T p.Ala45Val phage resistance protein
3961836 snp A C missense_variant c.379A>C p.Ser127Arg phage resistance protein
3961849 snp C A missense_variant c.392C>A p.Ala131Asp phage resistance protein
3962101 snp C T missense_variant c.644C>T p.Ala215Val phage resistance protein
3962466 snp A G missense_variant c.1009A>G p.Ser337Gly phage resistance protein
4441361 snp A G missense_variant c.121A>G p.Thr41Ala acriflavin resistance protein AcrA
4492014 snp A T missense_variant c.307A>T p.Thr103Ser emrB multidrug resistance protein B
4492263 snp C A missense_variant c.556C>A p.Leu186Met emrB multidrug resistance protein B
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A G missense_variant c.140A>G p.Asn47Ser copper resistance protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013526 snp T C missense_variant c.32T>C p.Val11Ala acid-resistance protein
5013573 snp G C missense_variant c.79G>C p.Glu27Gln acid-resistance protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ID187CT
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
884789 snp G T missense_variant c.640C>A p.Arg214Ser NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2482969 snp C A missense_variant c.844C>A p.Leu282Ile NA quinolone resistance protein
3032781 snp A T missense_variant c.6A>T p.Gln2His NA glyoxalase/bleomycin resistance protein/dioxygenase
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117207 snp C T missense_variant c.460G>A p.Asp154Asn NA tellurite resistance protein TehB
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3225725 snp T G missense_variant c.586A>C p.Asn196His NA bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu NA acid-resistance membrane protein
5013702 snp C T missense_variant c.208C>T p.His70Tyr NA acid-resistance protein
ID188
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146244 snp C T missense_variant c.455C>T p.Ser152Leu NA acriflavine resistance protein E
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr NA copper resistance protein
885008 snp T C missense_variant c.421A>G p.Lys141Glu NA copper resistance protein
885061 snp T A missense_variant c.368A>T p.Tyr123Phe NA copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala NA copper resistance protein
2245508 snp A T missense_variant c.25A>T p.Ile9Phe NA multiple stress resistance protein BhsA
2482418 snp T A missense_variant c.293T>A p.Leu98Gln NA quinolone resistance protein
2483203 snp G A missense_variant c.1078G>A p.Ala360Thr NA quinolone resistance protein
2483281 snp G A missense_variant c.1156G>A p.Asp386Asn NA quinolone resistance protein
2483485 snp G A missense_variant c.1360G>A p.Ala454Thr NA quinolone resistance protein
3032806 snp G A missense_variant c.31G>A p.Val11Ile NA glyoxalase/bleomycin resistance protein/dioxygenase
3048006 snp C T missense_variant c.1282G>A p.Ala428Thr NA methyl viologen resistance protein SmvA
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3226253 snp C T missense_variant c.58G>A p.Gly20Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3961966 snp C T missense_variant c.509C>T p.Thr170Ile NA phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4441263 snp G A missense_variant c.23G>A p.Gly8Glu NA acriflavin resistance protein AcrA
4793590 snp C T missense_variant c.19C>T p.Pro7Ser NA multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829252 snp C A missense_variant c.178C>A p.Leu60Ile NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
5013460 snp C G missense_variant c.568C>G p.Gln190Glu NA acid-resistance membrane protein
ID198
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
188902 snp G C missense_variant c.508G>C p.Val170Leu emrD multidrug resistance protein D
442551 snp T G missense_variant c.400A>C p.Ile134Leu chloramphenical resistance permease RarD
513563 snp C A missense_variant c.67G>T p.Ala23Ser zraP zinc resistance protein
2482423 snp G A missense_variant c.298G>A p.Val100Ile quinolone resistance protein
2483368 snp G A missense_variant c.1243G>A p.Gly415Ser quinolone resistance protein
3117128 snp A G missense_variant c.539T>C p.Val180Ala tellurite resistance protein TehB
3117207 snp C T missense_variant c.460G>A p.Asp154Asn tellurite resistance protein TehB
3160355 snp G A missense_variant c.425G>A p.Ser142Asn fusaric acid resistance protein
3191246 snp A T missense_variant c.193A>T p.Ser65Cys bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile copper resistance protein
ID260
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146714 snp G A missense_variant c.925G>A p.Asp309Asn acriflavine resistance protein E
146742 snp C A missense_variant c.953C>A p.Ala318Asp acriflavine resistance protein E
146754 snp A C missense_variant c.965A>C p.Glu322Ala acriflavine resistance protein E
146899 snp C A missense_variant c.1110C>A p.Asn370Lys acriflavine resistance protein E
188602 snp G A missense_variant c.208G>A p.Val70Ile emrD multidrug resistance protein D
189280 snp A G missense_variant c.886A>G p.Ile296Val emrD multidrug resistance protein D
189473 snp C A missense_variant c.1079C>A p.Thr360Asn emrD multidrug resistance protein D
338901 snp G A missense_variant c.46G>A p.Ala16Thr 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339086 snp G T missense_variant c.231G>T p.Glu77Asp 6-N-hydroxylaminopurine resistance protein
339237 snp G T missense_variant c.382G>T p.Ala128Ser 6-N-hydroxylaminopurine resistance protein
339359 snp T G missense_variant c.504T>G p.Asp168Glu 6-N-hydroxylaminopurine resistance protein
339395 snp G T missense_variant c.540G>T p.Gln180His 6-N-hydroxylaminopurine resistance protein
442554 snp C T missense_variant c.397G>A p.Val133Met chloramphenical resistance permease RarD
513223 snp G C missense_variant c.407C>G p.Ala136Gly zraP zinc resistance protein
513290 snp T G missense_variant c.340A>C p.Ile114Leu zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513522 snp C G missense_variant c.108G>C p.Met36Ile zraP zinc resistance protein
513563 snp C T missense_variant c.67G>A p.Ala23Thr zraP zinc resistance protein
513571 snp G C missense_variant c.59C>G p.Ala20Gly zraP zinc resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp copper resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr copper resistance protein
884975 snp T G missense_variant c.454A>C p.Lys152Gln copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418452 snp C T missense_variant c.406G>A p.Ala136Thr oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508432 snp T A missense_variant c.781A>T p.Thr261Ser Fosmidomycin resistance protein
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1509185 snp A C missense_variant c.28T>G p.Leu10Val Fosmidomycin resistance protein
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
2482402 snp G A missense_variant c.277G>A p.Val93Ile quinolone resistance protein
2482835 snp C G missense_variant c.710C>G p.Thr237Ser quinolone resistance protein
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G A missense_variant c.8G>A p.Ser3Asn glyoxalase/bleomycin resistance protein/dioxygenase
3048036 snp A T missense_variant c.1252T>A p.Ser418Thr methyl viologen resistance protein SmvA
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3048690 snp C T missense_variant c.598G>A p.Val200Ile methyl viologen resistance protein SmvA
3048718 snp T G missense_variant c.570A>C p.Glu190Asp methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117314 snp G C missense_variant c.353C>G p.Ala118Gly tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117483 snp G C missense_variant c.184C>G p.Pro62Ala tellurite resistance protein TehB
3117507 snp C T missense_variant c.160G>A p.Ala54Thr tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3961497 snp T A missense_variant c.40T>A p.Leu14Ile phage resistance protein
3961797 snp A G missense_variant c.340A>G p.Asn114Asp phage resistance protein
3961810 snp G C missense_variant c.353G>C p.Ser118Thr phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
3962100 snp G A missense_variant c.643G>A p.Ala215Thr phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962466 snp A C missense_variant c.1009A>C p.Ser337Arg phage resistance protein
4441278 snp C G missense_variant c.38C>G p.Thr13Ser acriflavin resistance protein AcrA
4442311 snp T G missense_variant c.1071T>G p.Asn357Lys acriflavin resistance protein AcrA
4442366 snp C G missense_variant c.1126C>G p.Pro376Ala acriflavin resistance protein AcrA
4442396 snp T C missense_variant c.1156T>C p.Ser386Pro acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4794098 snp A G missense_variant c.527A>G p.Lys176Arg multidrug resistance protein MdtN
4794154 snp G A missense_variant c.583G>A p.Val195Ile multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A C missense_variant c.140A>C p.Asn47Thr copper resistance protein
5012908 snp C A missense_variant c.16C>A p.His6Asn acid-resistance membrane protein
5013217 snp A T missense_variant c.325A>T p.Ile109Phe acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013461 snp A G missense_variant c.569A>G p.Gln190Arg acid-resistance membrane protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ORTHO042EI
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
189023 snp A C missense_variant c.629A>C p.Asn210Thr emrD multidrug resistance protein D
189094 snp A C missense_variant c.700A>C p.Met234Leu emrD multidrug resistance protein D
189232 snp T A missense_variant c.838T>A p.Cys280Ser emrD multidrug resistance protein D
442359 snp T C missense_variant c.592A>G p.Thr198Ala chloramphenical resistance permease RarD
442560 snp G C missense_variant c.391C>G p.Leu131Val chloramphenical resistance permease RarD
1508288 snp C T missense_variant c.925G>A p.Val309Ile Fosmidomycin resistance protein
1508445 snp A T missense_variant c.768T>A p.His256Gln Fosmidomycin resistance protein
4441943 snp C A missense_variant c.703C>A p.Arg235Ser acriflavin resistance protein AcrA
4442099 snp T G missense_variant c.859T>G p.Ser287Ala acriflavin resistance protein AcrA
4442109 snp T A missense_variant c.869T>A p.Leu290Gln acriflavin resistance protein AcrA
4442396 snp T G missense_variant c.1156T>G p.Ser386Ala acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4492006 snp A G missense_variant c.299A>G p.Asn100Ser emrB multidrug resistance protein B
4492119 snp A G missense_variant c.412A>G p.Ile138Val emrB multidrug resistance protein B
ORTHO053E
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146714 snp G A missense_variant c.925G>A p.Asp309Asn acriflavine resistance protein E
146742 snp C A missense_variant c.953C>A p.Ala318Asp acriflavine resistance protein E
146754 snp A C missense_variant c.965A>C p.Glu322Ala acriflavine resistance protein E
188602 snp G A missense_variant c.208G>A p.Val70Ile emrD multidrug resistance protein D
189280 snp A G missense_variant c.886A>G p.Ile296Val emrD multidrug resistance protein D
189473 snp C A missense_variant c.1079C>A p.Thr360Asn emrD multidrug resistance protein D
338901 snp G A missense_variant c.46G>A p.Ala16Thr 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339080 snp G T missense_variant c.225G>T p.Gln75His 6-N-hydroxylaminopurine resistance protein
339086 snp G T missense_variant c.231G>T p.Glu77Asp 6-N-hydroxylaminopurine resistance protein
339237 snp G T missense_variant c.382G>T p.Ala128Ser 6-N-hydroxylaminopurine resistance protein
339359 snp T G missense_variant c.504T>G p.Asp168Glu 6-N-hydroxylaminopurine resistance protein
339395 snp G T missense_variant c.540G>T p.Gln180His 6-N-hydroxylaminopurine resistance protein
442554 snp C T missense_variant c.397G>A p.Val133Met chloramphenical resistance permease RarD
513211 snp A C missense_variant c.419T>G p.Met140Arg zraP zinc resistance protein
513223 snp G C missense_variant c.407C>G p.Ala136Gly zraP zinc resistance protein
513290 snp T G missense_variant c.340A>C p.Ile114Leu zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513522 snp C G missense_variant c.108G>C p.Met36Ile zraP zinc resistance protein
513563 snp C T missense_variant c.67G>A p.Ala23Thr zraP zinc resistance protein
513571 snp G C missense_variant c.59C>G p.Ala20Gly zraP zinc resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp copper resistance protein
884801 snp T G missense_variant c.628A>C p.Lys210Gln copper resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr copper resistance protein
884975 snp T G missense_variant c.454A>C p.Lys152Gln copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508432 snp T A missense_variant c.781A>T p.Thr261Ser Fosmidomycin resistance protein
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1509185 snp A C missense_variant c.28T>G p.Leu10Val Fosmidomycin resistance protein
2209992 snp A G missense_variant c.1088T>C p.Val363Ala multidrug resistance protein MdtH
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
2482402 snp G A missense_variant c.277G>A p.Val93Ile quinolone resistance protein
2482835 snp C G missense_variant c.710C>G p.Thr237Ser quinolone resistance protein
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483239 snp C A missense_variant c.1114C>A p.Leu372Met quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G A missense_variant c.8G>A p.Ser3Asn glyoxalase/bleomycin resistance protein/dioxygenase
3048036 snp A T missense_variant c.1252T>A p.Ser418Thr methyl viologen resistance protein SmvA
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3048690 snp C T missense_variant c.598G>A p.Val200Ile methyl viologen resistance protein SmvA
3048718 snp T G missense_variant c.570A>C p.Glu190Asp methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117314 snp G C missense_variant c.353C>G p.Ala118Gly tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117483 snp G C missense_variant c.184C>G p.Pro62Ala tellurite resistance protein TehB
3117507 snp C T missense_variant c.160G>A p.Ala54Thr tellurite resistance protein TehB
3117519 snp C A missense_variant c.148G>T p.Ala50Ser tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225516 snp C A missense_variant c.795G>T p.Trp265Cys bicyclomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3961509 snp A T missense_variant c.52A>T p.Ser18Cys phage resistance protein
3961797 snp A G missense_variant c.340A>G p.Asn114Asp phage resistance protein
3961810 snp G C missense_variant c.353G>C p.Ser118Thr phage resistance protein
3961836 snp A C missense_variant c.379A>C p.Ser127Arg phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
3962100 snp G A missense_variant c.643G>A p.Ala215Thr phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962466 snp A C missense_variant c.1009A>C p.Ser337Arg phage resistance protein
4442311 snp T G missense_variant c.1071T>G p.Asn357Lys acriflavin resistance protein AcrA
4442396 snp T C missense_variant c.1156T>C p.Ser386Pro acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4794098 snp A G missense_variant c.527A>G p.Lys176Arg multidrug resistance protein MdtN
4794154 snp G A missense_variant c.583G>A p.Val195Ile multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A C missense_variant c.140A>C p.Asn47Thr copper resistance protein
5012908 snp C A missense_variant c.16C>A p.His6Asn acid-resistance membrane protein
5013217 snp A T missense_variant c.325A>T p.Ile109Phe acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013461 snp A G missense_variant c.569A>G p.Gln190Arg acid-resistance membrane protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ORTHO066E
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146714 snp G A missense_variant c.925G>A p.Asp309Asn acriflavine resistance protein E
146742 snp C A missense_variant c.953C>A p.Ala318Asp acriflavine resistance protein E
146754 snp A C missense_variant c.965A>C p.Glu322Ala acriflavine resistance protein E
188602 snp G A missense_variant c.208G>A p.Val70Ile emrD multidrug resistance protein D
189280 snp A G missense_variant c.886A>G p.Ile296Val emrD multidrug resistance protein D
189473 snp C A missense_variant c.1079C>A p.Thr360Asn emrD multidrug resistance protein D
338901 snp G A missense_variant c.46G>A p.Ala16Thr 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339080 snp G T missense_variant c.225G>T p.Gln75His 6-N-hydroxylaminopurine resistance protein
339086 snp G T missense_variant c.231G>T p.Glu77Asp 6-N-hydroxylaminopurine resistance protein
339237 snp G T missense_variant c.382G>T p.Ala128Ser 6-N-hydroxylaminopurine resistance protein
339359 snp T G missense_variant c.504T>G p.Asp168Glu 6-N-hydroxylaminopurine resistance protein
339395 snp G T missense_variant c.540G>T p.Gln180His 6-N-hydroxylaminopurine resistance protein
513211 snp A C missense_variant c.419T>G p.Met140Arg zraP zinc resistance protein
513223 snp G C missense_variant c.407C>G p.Ala136Gly zraP zinc resistance protein
513290 snp T G missense_variant c.340A>C p.Ile114Leu zraP zinc resistance protein
513475 snp A G missense_variant c.155T>C p.Val52Ala zraP zinc resistance protein
513522 snp C G missense_variant c.108G>C p.Met36Ile zraP zinc resistance protein
513563 snp C T missense_variant c.67G>A p.Ala23Thr zraP zinc resistance protein
513571 snp G C missense_variant c.59C>G p.Ala20Gly zraP zinc resistance protein
884590 snp C T missense_variant c.839G>A p.Gly280Asp copper resistance protein
884801 snp T G missense_variant c.628A>C p.Lys210Gln copper resistance protein
884806 snp A G missense_variant c.623T>C p.Met208Thr copper resistance protein
884975 snp T G missense_variant c.454A>C p.Lys152Gln copper resistance protein
885118 snp A G missense_variant c.311T>C p.Val104Ala copper resistance protein
885379 snp A G missense_variant c.50T>C p.Leu17Pro copper resistance protein
885380 snp G C missense_variant c.49C>G p.Leu17Val copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508432 snp T A missense_variant c.781A>T p.Thr261Ser Fosmidomycin resistance protein
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1509185 snp A C missense_variant c.28T>G p.Leu10Val Fosmidomycin resistance protein
2209992 snp A G missense_variant c.1088T>C p.Val363Ala multidrug resistance protein MdtH
2482166 snp A G missense_variant c.41A>G p.Asn14Ser quinolone resistance protein
2482402 snp G A missense_variant c.277G>A p.Val93Ile quinolone resistance protein
2482835 snp C G missense_variant c.710C>G p.Thr237Ser quinolone resistance protein
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483239 snp C A missense_variant c.1114C>A p.Leu372Met quinolone resistance protein
2483456 snp T C missense_variant c.1331T>C p.Val444Ala quinolone resistance protein
3032783 snp G A missense_variant c.8G>A p.Ser3Asn glyoxalase/bleomycin resistance protein/dioxygenase
3048391 snp T C missense_variant c.897A>G p.Ile299Met methyl viologen resistance protein SmvA
3048600 snp G T missense_variant c.688C>A p.Leu230Ile methyl viologen resistance protein SmvA
3048690 snp C T missense_variant c.598G>A p.Val200Ile methyl viologen resistance protein SmvA
3048718 snp T G missense_variant c.570A>C p.Glu190Asp methyl viologen resistance protein SmvA
3049041 snp T C missense_variant c.247A>G p.Ile83Val methyl viologen resistance protein SmvA
3117314 snp G C missense_variant c.353C>G p.Ala118Gly tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3117483 snp G C missense_variant c.184C>G p.Pro62Ala tellurite resistance protein TehB
3117507 snp C T missense_variant c.160G>A p.Ala54Thr tellurite resistance protein TehB
3117519 snp C A missense_variant c.148G>T p.Ala50Ser tellurite resistance protein TehB
3117636 snp G C missense_variant c.31C>G p.Gln11Glu tellurite resistance protein TehB
3161233 snp G A missense_variant c.1303G>A p.Val435Ile fusaric acid resistance protein
3161362 snp G T missense_variant c.1432G>T p.Ala478Ser fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3191351 snp A G missense_variant c.298A>G p.Ile100Val bleomycin resistance protein
3225516 snp C A missense_variant c.795G>T p.Trp265Cys bicyclomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3961509 snp A T missense_variant c.52A>T p.Ser18Cys phage resistance protein
3961797 snp A G missense_variant c.340A>G p.Asn114Asp phage resistance protein
3961810 snp G C missense_variant c.353G>C p.Ser118Thr phage resistance protein
3961836 snp A C missense_variant c.379A>C p.Ser127Arg phage resistance protein
3962086 snp T C missense_variant c.629T>C p.Val210Ala phage resistance protein
3962100 snp G A missense_variant c.643G>A p.Ala215Thr phage resistance protein
3962292 snp A G missense_variant c.835A>G p.Ile279Val phage resistance protein
3962466 snp A C missense_variant c.1009A>C p.Ser337Arg phage resistance protein
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4794154 snp G A missense_variant c.583G>A p.Val195Ile multidrug resistance protein MdtN
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829214 snp A C missense_variant c.140A>C p.Asn47Thr copper resistance protein
5012908 snp C A missense_variant c.16C>A p.His6Asn acid-resistance membrane protein
5013217 snp A T missense_variant c.325A>T p.Ile109Phe acid-resistance membrane protein
5013274 snp C A missense_variant c.382C>A p.Gln128Lys acid-resistance membrane protein
5013331 snp C A missense_variant c.439C>A p.Leu147Ile acid-resistance membrane protein
5013461 snp A G missense_variant c.569A>G p.Gln190Arg acid-resistance membrane protein
5013741 snp G C missense_variant c.247G>C p.Glu83Gln acid-resistance protein
ORTHO067E
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
145802 snp A C missense_variant c.11T>G p.Met4Arg NA acriflavine resistance protein E
146127 snp T C missense_variant c.338T>C p.Val113Ala NA acriflavine resistance protein E
338926 snp G A missense_variant c.71G>A p.Gly24Asp NA 6-N-hydroxylaminopurine resistance protein
338973 snp A G missense_variant c.118A>G p.Asn40Asp NA 6-N-hydroxylaminopurine resistance protein
339238 snp C T missense_variant c.383C>T p.Ala128Val NA 6-N-hydroxylaminopurine resistance protein
885326 snp A C missense_variant c.103T>G p.Ser35Ala NA copper resistance protein
1418734 snp T C missense_variant c.124A>G p.Ser42Gly NA oxidative-stress-resistance chaperone
1508402 snp C T missense_variant c.811G>A p.Ala271Thr NA Fosmidomycin resistance protein
1735636 snp C G missense_variant c.346G>C p.Val116Leu NA camphor resistance protein CrcB
2483395 snp G A missense_variant c.1270G>A p.Ala424Thr NA quinolone resistance protein
3032791 snp G A missense_variant c.16G>A p.Val6Ile NA glyoxalase/bleomycin resistance protein/dioxygenase
3117128 snp A G missense_variant c.539T>C p.Val180Ala NA tellurite resistance protein TehB
3117659 snp T A missense_variant c.8A>T p.Lys3Met NA tellurite resistance protein TehB
3191253 snp A T missense_variant c.200A>T p.Asp67Val NA bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala NA bicyclomycin resistance protein
3226250 snp C T missense_variant c.61G>A p.Gly21Ser NA bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala NA tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val NA multidrug resistance outer membrane protein MdtQ
3962086 snp T C missense_variant c.629T>C p.Val210Ala NA phage resistance protein
4829111 snp T C missense_variant c.37T>C p.Phe13Leu NA copper resistance protein
4829226 snp T C missense_variant c.152T>C p.Val51Ala NA copper resistance protein
4829387 snp C T missense_variant c.313C>T p.Pro105Ser NA copper resistance protein
4829420 snp G A missense_variant c.346G>A p.Val116Ile NA copper resistance protein
ORTHO08HWII
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
146849 snp G A missense_variant c.1060G>A p.Gly354Ser acriflavine resistance protein E
339062 snp C G missense_variant c.207C>G p.Ile69Met 6-N-hydroxylaminopurine resistance protein
339068 snp C A missense_variant c.213C>A p.Asp71Glu 6-N-hydroxylaminopurine resistance protein
339261 snp A G missense_variant c.406A>G p.Met136Val 6-N-hydroxylaminopurine resistance protein
513290 snp T C missense_variant c.340A>G p.Ile114Val zraP zinc resistance protein
884186 snp A G missense_variant c.1243T>C p.Ser415Pro copper resistance protein
884348 snp T G missense_variant c.1081A>C p.Ile361Leu copper resistance protein
884776 snp G T missense_variant c.653C>A p.Thr218Lys copper resistance protein
885359 snp C T missense_variant c.70G>A p.Ala24Thr copper resistance protein
885380 snp G C missense_variant c.49C>G p.Leu17Val copper resistance protein
1418447 snp C A missense_variant c.411G>T p.Glu137Asp oxidative-stress-resistance chaperone
1418602 snp T G missense_variant c.256A>C p.Thr86Pro oxidative-stress-resistance chaperone
1418734 snp T C missense_variant c.124A>G p.Ser42Gly oxidative-stress-resistance chaperone
1508544 snp C A missense_variant c.669G>T p.Lys223Asn Fosmidomycin resistance protein
1735855 snp A C missense_variant c.127T>G p.Leu43Val camphor resistance protein CrcB
2210643 snp G C missense_variant c.437C>G p.Ala146Gly multidrug resistance protein MdtH
2245680 snp A T missense_variant c.197A>T p.Tyr66Phe multiple stress resistance protein BhsA
2483199 snp A T missense_variant c.1074A>T p.Glu358Asp quinolone resistance protein
2483221 snp G C missense_variant c.1096G>C p.Val366Leu quinolone resistance protein
3117395 snp C G missense_variant c.272G>C p.Ser91Thr tellurite resistance protein TehB
3117474 snp C T missense_variant c.193G>A p.Val65Ile tellurite resistance protein TehB
3159943 snp A G missense_variant c.13A>G p.Thr5Ala fusaric acid resistance protein
3159958 snp G A missense_variant c.28G>A p.Ala10Thr fusaric acid resistance protein
3161816 snp A T missense_variant c.1886A>T p.Gln629Leu fusaric acid resistance protein
3161831 snp C T missense_variant c.1901C>T p.Ala634Val fusaric acid resistance protein
3161923 snp G A missense_variant c.1993G>A p.Val665Met fusaric acid resistance protein
3191119 snp C G missense_variant c.66C>G p.Asp22Glu bleomycin resistance protein
3225577 snp T G missense_variant c.734A>C p.Glu245Ala bicyclomycin resistance protein
3777825 snp T C missense_variant c.151A>G p.Thr51Ala tellurite resistance protein
3921241 snp T C missense_variant c.937A>G p.Met313Val multidrug resistance outer membrane protein MdtQ
3921433 snp T C missense_variant c.745A>G p.Thr249Ala multidrug resistance outer membrane protein MdtQ
3921844 snp T C missense_variant c.334A>G p.Ile112Val multidrug resistance outer membrane protein MdtQ
4441325 snp G A missense_variant c.85G>A p.Asp29Asn acriflavin resistance protein AcrA
4442405 snp A G missense_variant c.1165A>G p.Thr389Ala acriflavin resistance protein AcrA
4492965 snp C A missense_variant c.1258C>A p.Leu420Met emrB multidrug resistance protein B
4493045 snp A G missense_variant c.1338A>G p.Ile446Met emrB multidrug resistance protein B
4829111 snp T C missense_variant c.37T>C p.Phe13Leu copper resistance protein
4829217 snp A C missense_variant c.143A>C p.Gln48Pro copper resistance protein
5013526 snp T C missense_variant c.32T>C p.Val11Ala acid-resistance protein
5013544 snp G A missense_variant c.50G>A p.Cys17Tyr acid-resistance protein
5013573 snp G C missense_variant c.79G>C p.Glu27Gln acid-resistance protein


Back to index

Phylogenetic inference

Phylogenetic inference based on vcf SNPS

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


Back to index

Antimicrobial Resistance Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product
Resistance Antibiotic that the gene confers resistance to


Select the samples and the database

ID014CT
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00056 19730 20533 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00056 18894 19730 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00056 13616 14491 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00279 1150 2009 blaOKP-B-16_1 0/0 99.9 99.8 AM850918 blaOKP-B-16
contig00056 17313 18173 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00499 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00483 183 665 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00138 10722 11141 fosA_6 0/0 100.0 93.3 ACZD01000244 fosA Fosfomycin
contig00009 46282 47457 oqxA_1 0/0 100.0 93.8 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00009 47481 50633 oqxB_1 0/0 100.0 95.6 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00056 8319 8975 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00319 28 843 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00056 19730 20533 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00056 18894 19730 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00056 13616 14491 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00138 10722 11141 FosA6 0/0 100.0 92.9 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00239 2128 2457 Klebsiella_pneumoniae_KpnF 0/0 100.0 92.7 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00057 1108 2232 Klebsiella_pneumoniae_OmpK37 0/0 100.0 92.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00039 3129 4322 Klebsiella_pneumoniae_acrA 2/3 99.8 95.1 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00279 1150 2009 OKP-B-5 0/0 99.9 99.8 AM850918:24-885 OKP-B-5 is a beta-lactamase found in Klebsiella pneumoniae cephalosporin, penam
contig00056 8319 8975 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00056 17313 18173 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00499 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00483 183 665 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00009 46282 47457 oqxA 0/0 100.0 93.8 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00009 47481 50633 oqxB 0/0 100.0 95.6 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00319 28 843 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00056 19730 20533 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00056 18894 19730 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00134 5212 6372 (Bla)ampH 0/0 100.0 96.0 CP003785:4208384-4209544 (Bla)ampH NA
contig00056 13616 14491 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00279 1150 2009 (Bla)blaOKP-B-5 0/0 99.9 99.8 AY512506:68-928 (Bla)blaOKP-B-5 NA
contig00056 17313 18173 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00138 10722 11141 (Fcyn)FosA6 0/0 100.0 92.9 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00009 46282 47457 (Flq)OqxA 0/0 100.0 93.8 EU370913:46652-47827 (Flq)OqxA NA
contig00009 47481 50633 (Flq)OqxBgb 0/0 100.0 95.6 EU370913:47851-51003 (Flq)OqxBgb NA
contig00056 8319 8975 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00499 91 732 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00319 28 843 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00483 183 656 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00056 19730 20557 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00056 18894 19730 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00056 13616 14491 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00279 1149 2009 blaOKP-B-45 0/0 100 99.9 NG_067154.1 class A broad-spectrum beta-lactamase OKP-B-45 BETA-LACTAM
contig00056 17313 18173 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00499 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00483 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00138 10722 11141 fosA_gen 0/0 100 93.3 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00009 46282 47457 oqxA10 0/0 100 94.0 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00009 47481 50633 oqxB11 0/0 100 96.2 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00056 8319 8975 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00319 28 843 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00056 19730 20557 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00056 18894 19730 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00056 13616 14491 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00279 1149 2009 blaOKP-B-45 0/0 100 99.9 NG_067154.1 class A broad-spectrum beta-lactamase OKP-B-45 BETA-LACTAM
contig00056 17313 18173 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00499 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00483 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00138 10722 11141 fosA_gen 0/0 100 93.3 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00009 46282 47457 oqxA10 0/0 100 94.0 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00009 47481 50633 oqxB11 0/0 100 96.2 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00056 8319 8975 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00319 28 843 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
ID025
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00388 637 1425 aadA5_1 0/0 100 100.0 AF137361 aadA5 Streptomycin
contig00283 2507 3310 aph(3’’)-Ib_5 0/0 100 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00283 1671 2507 aph(6)-Id_1 0/0 100 100.0 M28829 aph(6)-Id Streptomycin
contig00027 8277 9152 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00027 4595 5455 blaTEM-1C_1 0/0 100 100.0 FJ560503 blaTEM-1C Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00833 91 732 catA2_1 0/0 100 96.1 X53796 catA2 Chloramphenicol
contig00388 1556 2029 dfrA17_1 0/0 100 100.0 FJ460238 dfrA17 Trimethoprim
contig00027 2461 3117 qnrS1_1 0/0 100 100.0 AB187515 qnrS1 Ciprofloxacin
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00283 2507 3310 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00283 1671 2507 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00027 8277 9152 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00200 1127 1489 Klebsiella_pneumoniae_KpnE 0/0 100.0 91.7 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00200 811 1140 Klebsiella_pneumoniae_KpnF 0/0 100.0 94.8 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00492 440 1564 Klebsiella_pneumoniae_OmpK37 0/0 100.0 95.8 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00038 3126 4319 Klebsiella_pneumoniae_acrA 2/3 99.8 94.7 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00027 2461 3117 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00004 27313 27837 SAT-1 0/0 100.0 100.0 AB211124:0-525 SAT-2 is a plasmid-mediated streptothricin acetyltransferase which confers resistance to streptothricin a nucleoside antibiotic. Originally described from an E. coli plasmid sequence by Heim et al. 1989. nucleoside
contig00027 4595 5455 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00388 637 1425 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00833 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00388 1556 2029 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00004 26467 27266 (AGly)aadA1-pm 1/3 96.3 99.5 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00388 637 1425 (AGly)aadA5 0/0 100.0 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00004 27313 27837 (AGly)sat-2A 0/0 100.0 100.0 X51546:518-1042 (AGly)sat-2A NA
contig00283 2507 3310 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00283 1671 2507 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00027 8277 9152 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00027 4595 5455 (Bla)blaTEM-135 0/0 100.0 99.9 JQ060998:1-861 (Bla)blaTEM-135 NA
contig00027 2461 3117 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00833 91 732 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00388 1556 2029 (Tmt)dfrA17 0/0 100.0 100.0 AB126604:98-571 (Tmt)dfrA17 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00004 26467 27255 aadA1 0/0 100 100.0 NG_047327.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00388 637 1425 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00283 2507 3334 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00283 1671 2507 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00027 8277 9152 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00027 4595 5455 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00833 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00388 1556 2029 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00027 2461 3117 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00004 27313 27837 sat2_gen 0/0 100 100.0 NG_048068.1 streptothricin N-acetyltransferase Sat2 STREPTOTHRICIN
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00004 26467 27255 aadA1 0/0 100 100.0 NG_047327.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00388 637 1425 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00283 2507 3334 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00283 1671 2507 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00027 8277 9152 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00027 4595 5455 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00833 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00388 1556 2029 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00027 2461 3117 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00004 27313 27837 sat2_gen 0/0 100 100.0 NG_048068.1 streptothricin N-acetyltransferase Sat2 STREPTOTHRICIN
ID037
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00241 2933 3425 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00145 2118 2978 aac(3)-IIa_1 0/0 100.0 100.0 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00241 3482 4081 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00241 1301 2146 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00466 117 920 aph(3’’)-Ib_5 0/0 100.0 99.9 AF321551 aph(3’’)-Ib Streptomycin
contig00274 1685 2560 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00145 1116 1976 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00241 2327 2800 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00283 4954 5373 fosA6_1 0/0 97.0 98.8 KU254579 fosA6 Fosfomycin
contig00094 6725 7900 oqxA_1 0/0 100.0 99.3 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00094 3549 6701 oqxB_1 0/0 100.0 98.8 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00339 192 836 qnrB6_2 0/0 100.0 100.0 EF523819 qnrB6 Ciprofloxacin
contig00241 4 870 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00466 981 1796 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00375 1639 2823 tet(D)_1 0/0 100.0 100.0 AF467077 tet(D) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 2118 2978 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00241 3482 4081 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00466 117 920 APH(3’’)-Ib 0/0 100.0 99.6 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00274 1685 2560 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00283 4954 5373 FosA6 0/0 100.0 98.8 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00153 6542 6904 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.2 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00153 6226 6555 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.4 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00204 3151 4323 Klebsiella_pneumoniae_KpnG 0/0 100.0 98.9 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00190 1064 2218 Klebsiella_pneumoniae_OmpK37 7/32 99.9 95.3 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00144 3142 4335 Klebsiella_pneumoniae_acrA 2/3 99.8 97.7 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00339 156 836 QnrB17 0/0 100.0 99.8 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00145 1116 1976 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00241 1301 2146 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00241 2933 3385 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00241 2327 2800 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00094 6725 7900 oqxA 0/0 100.0 99.3 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00094 3549 6701 oqxB 0/0 100.0 98.8 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00241 4 843 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00466 981 1796 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00375 1639 2823 tet(D) 0/0 100.0 100.0 AF467077.1:163-1348 TetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 2118 2978 (AGly)aac3-IIa 0/0 100 100.0 X51534:91-951 (AGly)aac3-IIa NA
contig00241 1301 2146 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00466 117 920 (AGly)strA 0/0 100 99.8 AB366441:22458-23261 (AGly)strA NA
contig00077 11421 12581 (Bla)ampH 0/0 100 99.0 CP003785:4208384-4209544 (Bla)ampH NA
contig00274 1685 2560 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00145 1116 1976 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00283 4954 5373 (Fcyn)FosA6 0/0 100 98.8 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00094 6725 7900 (Flq)OqxA 0/0 100 99.3 EU370913:46652-47827 (Flq)OqxA NA
contig00094 3549 6701 (Flq)OqxBgb 0/0 100 98.8 EU370913:47851-51003 (Flq)OqxBgb NA
contig00339 156 836 (Flq)qnrB17 0/0 100 99.8 AM919398:1-681 (Flq)qnrB17 NA
contig00241 2933 3385 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00241 4 843 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00466 981 1796 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00375 1639 2823 (Tet)tetD 0/0 100 100.0 AB089602:1521-2705 (Tet)tetD NA
contig00241 2327 2800 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 2118 2978 aac(3)-IIe 0/0 100 100.0 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00241 3482 4036 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00241 1301 2146 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00466 117 944 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00241 2933 3385 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00274 1685 2560 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00145 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00241 2327 2800 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00283 4954 5373 fosA6 0/0 100 98.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00094 6725 7900 oqxA6 0/0 100 99.7 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00094 3549 6701 oqxB20 0/0 100 99.3 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00339 192 836 qnrB6 0/0 100 99.8 NG_050523.1 quinolone resistance pentapeptide repeat protein QnrB6 QUINOLONE
contig00241 4 843 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00466 981 1796 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00375 1639 2823 tet(D) 0/0 100 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 2118 2978 aac(3)-IIe 0/0 100 100.0 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00241 3482 4036 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00241 1301 2146 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00466 117 944 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00241 2933 3385 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00274 1685 2560 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00145 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00241 2327 2800 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00283 4954 5373 fosA6 0/0 100 98.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00094 6725 7900 oqxA6 0/0 100 99.7 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00094 3549 6701 oqxB20 0/0 100 99.3 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00339 192 836 qnrB6 0/0 100 99.8 NG_050523.1 quinolone resistance pentapeptide repeat protein QnrB6 QUINOLONE
contig00241 4 843 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00466 981 1796 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00375 1639 2823 tet(D) 0/0 100 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
ID06CT
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00186 3533 4336 aph(3’’)-Ib_5 0/0 100 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00186 2697 3533 aph(6)-Id_1 0/0 100 100.0 M28829 aph(6)-Id Streptomycin
contig00305 1685 2560 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00269 3466 4332 blaSHV-187_1 0/0 100 99.3 LN515533 blaSHV-187
contig00186 1116 1976 blaTEM-1B_1 0/0 100 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00231 183 665 dfrA14_5 0/0 100 99.6 DQ388123 dfrA14 Trimethoprim
contig00150 10649 11068 fosA6_1 0/0 97 98.3 KU254579 fosA6 Fosfomycin
contig00074 6210 7385 oqxA_1 0/0 100 99.4 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00074 3034 6186 oqxB_1 0/0 100 99.0 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00110 2703 3359 qnrS1_1 0/0 100 100.0 AB187515 qnrS1 Ciprofloxacin
contig00186 4397 5212 sul2_2 0/0 100 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00186 3533 4336 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00186 2697 3533 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00305 1685 2560 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00150 10649 11068 FosA6 0/0 100.0 98.3 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00082 14931 15293 Klebsiella_pneumoniae_KpnE 0/0 100.0 100.0 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00082 14615 14944 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.4 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00190 4003 5175 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00299 365 1489 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.2 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00035 3135 4328 Klebsiella_pneumoniae_acrA 2/3 99.8 97.8 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00110 2703 3359 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00269 3466 4332 SHV-187 0/0 100.0 99.3 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00186 1116 1976 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00231 183 665 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00074 6210 7385 oqxA 0/0 100.0 99.4 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00074 3034 6186 oqxB 0/0 100.0 99.0 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00186 4397 5212 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00186 3533 4336 (AGly)strA 0/0 100 99.9 AB366441:22458-23261 (AGly)strA NA
contig00186 2697 3533 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00096 11380 12540 (Bla)ampH 0/0 100 99.2 CP003785:4208384-4209544 (Bla)ampH NA
contig00305 1685 2560 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00269 3466 4332 (Bla)blaSHV-187 0/0 100 99.3 LN515533:1-867 (Bla)blaSHV-187 NA
contig00186 1116 1976 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00150 10649 11068 (Fcyn)FosA6 0/0 100 98.3 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00074 6210 7385 (Flq)OqxA 0/0 100 99.4 EU370913:46652-47827 (Flq)OqxA NA
contig00074 3034 6186 (Flq)OqxBgb 0/0 100 99.0 EU370913:47851-51003 (Flq)OqxBgb NA
contig00110 2703 3359 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00186 4397 5212 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00231 183 656 (Tmt)dfrA14 0/0 100 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00186 3533 4360 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00186 2697 3533 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00305 1685 2560 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00269 3472 4332 blaSHV-215 0/0 100 99.8 NG_062287.1 class A beta-lactamase SHV-215 BETA-LACTAM
contig00186 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00231 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00150 10649 11068 fosA6 0/0 100 98.3 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00074 6210 7385 oqxA6 0/0 100 99.8 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00074 3034 6186 oqxB19 0/0 100 99.3 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00110 2703 3359 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00186 4397 5212 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00186 3533 4360 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00186 2697 3533 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00305 1685 2560 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00269 3472 4332 blaSHV-215 0/0 100 99.8 NG_062287.1 class A beta-lactamase SHV-215 BETA-LACTAM
contig00186 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00231 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00150 10649 11068 fosA6 0/0 100 98.3 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00074 6210 7385 oqxA6 0/0 100 99.8 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00074 3034 6186 oqxB19 0/0 100 99.3 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00110 2703 3359 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00186 4397 5212 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
ID08CT
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00138 8835 9327 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00297 1604 2464 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00138 9384 9983 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00138 7203 8048 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00126 3533 4336 aph(3’’)-Ib_5 0/0 100.0 99.9 AF321551 aph(3’’)-Ib Streptomycin
contig00126 2697 3533 aph(6)-Id_1 0/0 100.0 99.9 M28829 aph(6)-Id Streptomycin
contig00287 1684 2559 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00169 7349 8209 blaSHV-106_1 0/0 100.0 99.9 AM922307 blaSHV-106 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00126 1116 1976 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00138 8229 8702 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00145 358 777 fosA6_1 0/0 97.0 99.8 KU254579 fosA6 Fosfomycin
contig00080 7093 8268 oqxA_1 0/0 100.0 98.9 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00080 3917 7069 oqxB_1 0/0 100.0 98.6 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00138 5906 6772 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00126 4397 5212 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00297 1604 2464 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00138 9384 9983 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00126 3533 4336 APH(3’’)-Ib 0/0 100.0 99.6 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00126 2697 3533 APH(6)-Id 0/0 100.0 99.8 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00287 1684 2559 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00145 358 777 FosA6 0/0 100.0 99.8 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00032 37654 38016 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00032 37338 37667 Klebsiella_pneumoniae_KpnF 0/0 100.0 100.0 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00172 4039 5211 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00088 1017 2171 Klebsiella_pneumoniae_OmpK37 7/32 99.9 95.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00058 3135 4328 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00169 7349 8209 SHV-106 0/0 100.0 99.9 AM941847:0-861 SHV-106 is an extended-spectrum beta-lactamase that has been found in clinical isolates. carbapenem, cephalosporin, penam
contig00126 1116 1976 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00138 7203 8048 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00138 8835 9287 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00138 8229 8702 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00080 7093 8268 oqxA 0/0 100.0 98.9 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00080 3917 7069 oqxB 0/0 100.0 98.6 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00138 5906 6745 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00126 4397 5212 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00297 1604 2464 (AGly)aac3-IIa 0/0 100 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00138 7203 8048 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00126 3533 4336 (AGly)strA 0/0 100 99.8 AB366441:22458-23261 (AGly)strA NA
contig00126 2697 3533 (AGly)strB 0/0 100 99.9 FJ474091:264-1100 (AGly)strB NA
contig00091 11409 12569 (Bla)ampH 0/0 100 99.1 CP003785:4208384-4209544 (Bla)ampH NA
contig00287 1684 2559 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00169 7349 8209 (Bla)blaSHV-106 0/0 100 99.9 AM941847:1-861 (Bla)blaSHV-106 NA
contig00126 1116 1976 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00145 358 777 (Fcyn)FosA6 0/0 100 99.8 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00080 7093 8268 (Flq)OqxA 0/0 100 98.9 EU370913:46652-47827 (Flq)OqxA NA
contig00080 3917 7069 (Flq)OqxBgb 0/0 100 98.6 EU370913:47851-51003 (Flq)OqxBgb NA
contig00138 8835 9287 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00138 5906 6745 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00126 4397 5212 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00138 8229 8702 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00297 1604 2464 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00138 9384 9938 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00138 7203 8048 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00126 3533 4360 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00126 2697 3533 aph(6)-Id 0/0 100 100.0 NG_047466.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00138 8835 9287 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00287 1684 2559 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00169 7349 8209 blaSHV-106 0/0 100 99.9 NG_049996.1 class A extended-spectrum beta-lactamase SHV-106 CEPHALOSPORIN
contig00126 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00138 8229 8702 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00145 358 777 fosA6 0/0 100 99.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00080 7093 8268 oqxA5 0/0 100 99.4 NG_050423.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA5 PHENICOL, QUINOLONE
contig00080 3917 7069 oqxB19 0/0 100 99.4 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00138 5906 6745 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00126 4397 5212 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00297 1604 2464 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00138 9384 9938 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00138 7203 8048 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00126 3533 4360 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00126 2697 3533 aph(6)-Id 0/0 100 100.0 NG_047466.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00138 8835 9287 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00287 1684 2559 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00169 7349 8209 blaSHV-106 0/0 100 99.9 NG_049996.1 class A extended-spectrum beta-lactamase SHV-106 CEPHALOSPORIN
contig00126 1116 1976 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00138 8229 8702 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00145 358 777 fosA6 0/0 100 99.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00080 7093 8268 oqxA5 0/0 100 99.4 NG_050423.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA5 PHENICOL, QUINOLONE
contig00080 3917 7069 oqxB19 0/0 100 99.4 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00138 5906 6745 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00126 4397 5212 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
ID125
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00175 6609 7101 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00175 7158 7757 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00175 4977 5822 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00062 5268 6143 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00252 3948 4814 blaSHV-187_1 0/0 100.0 100.0 LN515533 blaSHV-187
contig00062 1586 2446 blaTEM-1C_1 0/0 100.0 100.0 FJ560503 blaTEM-1C Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00428 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00175 6003 6476 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00143 103 522 fosA_3 0/0 100.0 98.8 ACWO01000079 fosA Fosfomycin
contig00463 69 990 mph(A)_2 1/1 100.0 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00017 40852 42027 oqxA_1 0/0 100.0 99.9 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00017 42051 45203 oqxB_1 0/0 100.0 99.1 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00062 10784 11440 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00175 3680 4546 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00312 2492 3738 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00175 7158 7757 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00062 5268 6143 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00143 103 522 FosA6 0/0 100.0 98.1 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00088 14940 15302 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00088 14624 14953 Klebsiella_pneumoniae_KpnF 0/0 100.0 100.0 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00195 4031 5203 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00141 1008 2132 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.1 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00002 5674 6867 Klebsiella_pneumoniae_acrA 2/3 99.8 97.8 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00062 10784 11440 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00252 3948 4814 SHV-187 0/0 100.0 100.0 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00062 1586 2446 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00175 4977 5822 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00175 6609 7061 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00428 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00175 6003 6476 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00463 69 974 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00017 40852 42027 oqxA 0/0 100.0 99.9 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00017 42051 45203 oqxB 0/0 100.0 99.1 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00175 3680 4519 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00312 2492 3738 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00175 4977 5822 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00078 11418 12578 (Bla)ampH 0/0 100 99.0 CP003785:4208384-4209544 (Bla)ampH NA
contig00062 5268 6143 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00252 3948 4814 (Bla)blaSHV-187 0/0 100 100.0 LN515533:1-867 (Bla)blaSHV-187 NA
contig00062 1586 2446 (Bla)blaTEM-135 0/0 100 99.9 JQ060998:1-861 (Bla)blaTEM-135 NA
contig00143 103 522 (Fcyn)FosA6 0/0 100 98.1 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00017 40852 42027 (Flq)OqxA 0/0 100 99.9 EU370913:46652-47827 (Flq)OqxA NA
contig00017 42051 45203 (Flq)OqxBgb 0/0 100 99.1 EU370913:47851-51003 (Flq)OqxBgb NA
contig00062 10784 11440 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00463 69 974 (MLS)mph(A) 0/0 100 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00428 91 732 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00175 6609 7061 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00175 3680 4519 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00312 2464 3738 (Tet)tetA 0/0 100 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00175 6003 6476 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00175 7158 7712 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00175 4977 5822 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00175 6609 7061 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00062 5268 6143 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00252 3948 4814 blaSHV-187 0/0 100 100.0 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00062 1586 2446 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00428 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00175 6003 6476 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00143 103 522 fosA_gen 0/0 100 98.8 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00463 69 990 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00017 40852 42027 oqxA 0/0 100 99.9 NG_048024.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA PHENICOL, QUINOLONE
contig00017 42051 45203 oqxB32 0/0 100 99.4 NG_050452.1 multidrug efflux RND transporter permease subunit OqxB32 PHENICOL, QUINOLONE
contig00062 10784 11440 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00175 3680 4519 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00312 2464 3663 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00175 7158 7712 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00175 4977 5822 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00175 6609 7061 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00062 5268 6143 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00252 3948 4814 blaSHV-187 0/0 100 100.0 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00062 1586 2446 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00428 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00175 6003 6476 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00143 103 522 fosA_gen 0/0 100 98.8 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00463 69 990 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00017 40852 42027 oqxA 0/0 100 99.9 NG_048024.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA PHENICOL, QUINOLONE
contig00017 42051 45203 oqxB32 0/0 100 99.4 NG_050452.1 multidrug efflux RND transporter permease subunit OqxB32 PHENICOL, QUINOLONE
contig00062 10784 11440 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00175 3680 4519 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00312 2464 3663 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ID135
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 7920 8412 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00145 8469 9068 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00145 6288 7133 aadA16_1 0/0 100.0 99.6 EU675686 aadA16 Streptomycin
contig00074 5268 6143 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00199 3257 4123 blaSHV-187_1 0/0 100.0 99.4 LN515533 blaSHV-187
contig00074 1586 2446 blaTEM-1C_1 0/0 100.0 100.0 FJ560503 blaTEM-1C Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00302 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00145 7314 7787 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00130 549 968 fosA5_1 0/0 100.0 98.3 EU195449 fosA5 Fosfomycin
contig00010 21733 22908 oqxA_1 0/0 100.0 99.7 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00010 18557 21709 oqxB_1 0/0 100.0 98.8 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00074 10784 11440 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00145 4991 5857 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00233 2466 3712 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 8469 9068 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00074 5268 6143 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00130 549 968 FosA5 0/0 100.0 98.3 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig00031 37705 38067 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.2 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00031 37389 37718 Klebsiella_pneumoniae_KpnF 0/0 100.0 98.8 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00176 3979 5151 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.4 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00032 21480 22604 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.5 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00012 8284 9477 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00074 10784 11440 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00199 3257 4123 SHV-187 0/0 100.0 99.4 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00074 1586 2446 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00145 6288 7133 aadA16 0/0 100.0 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00145 7920 8372 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00302 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00145 7314 7787 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00010 21733 22908 oqxA 0/0 100.0 99.7 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00010 18557 21709 oqxB 0/0 100.0 98.8 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00145 4991 5830 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00233 2466 3712 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 6288 7133 (AGly)aadA16 0/0 100 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00050 18622 19782 (Bla)ampH 0/0 100 99.2 CP003785:4208384-4209544 (Bla)ampH NA
contig00074 5268 6143 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00199 3257 4123 (Bla)blaSHV-187 0/0 100 99.4 LN515533:1-867 (Bla)blaSHV-187 NA
contig00074 1586 2446 (Bla)blaTEM-135 0/0 100 99.9 JQ060998:1-861 (Bla)blaTEM-135 NA
contig00130 549 968 (Fcyn)FosA5 0/0 100 98.3 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00010 21733 22908 (Flq)OqxA 0/0 100 99.7 EU370913:46652-47827 (Flq)OqxA NA
contig00010 18557 21709 (Flq)OqxBgb 0/0 100 98.8 EU370913:47851-51003 (Flq)OqxBgb NA
contig00074 10784 11440 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00302 91 732 (Phe)catA2 0/0 100 96.1 X53796:187-903 (Phe)catA2 NA
contig00145 7920 8372 (Rif)arr3 0/0 100 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00145 4991 5830 (Sul)sul1 0/0 100 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00233 2438 3712 (Tet)tetA 0/0 100 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00233 3743 4393 (Tet)tetR 0/0 100 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00145 7314 7787 (Tmt)dfrA27 0/0 100 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 8469 9023 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00145 6288 7133 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00145 7920 8372 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00074 5268 6143 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00199 3257 4123 blaSHV-187 0/0 100 99.4 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00074 1586 2446 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00302 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00145 7314 7787 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00130 549 968 fosA5 0/0 100 98.3 NG_050409.1 fosfomycin resistance glutathione transferase FosA5 FOSFOMYCIN
contig00010 21733 22908 oqxA10 0/0 100 99.8 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00010 18557 21709 oqxB17 0/0 100 99.6 NG_050435.1 multidrug efflux RND transporter permease subunit OqxB17 PHENICOL, QUINOLONE
contig00074 10784 11440 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00145 4991 5830 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00233 2438 3637 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00145 8469 9023 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00145 6288 7133 aadA16 0/0 100 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00145 7920 8372 arr-3 0/0 100 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00074 5268 6143 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00199 3257 4123 blaSHV-187 0/0 100 99.4 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00074 1586 2446 blaTEM-235 0/0 100 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00302 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00145 7314 7787 dfrA27 0/0 100 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00130 549 968 fosA5 0/0 100 98.3 NG_050409.1 fosfomycin resistance glutathione transferase FosA5 FOSFOMYCIN
contig00010 21733 22908 oqxA10 0/0 100 99.8 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00010 18557 21709 oqxB17 0/0 100 99.6 NG_050435.1 multidrug efflux RND transporter permease subunit OqxB17 PHENICOL, QUINOLONE
contig00074 10784 11440 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00145 4991 5830 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00233 2438 3637 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ID149
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00153 1696 2556 aac(3)-IIa_1 0/0 100 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00158 1572 2171 aac(6’)-Ib-cr_1 0/0 100 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00008 76098 77243 blaACT-6_1 0/0 100 91.9 FJ237366 blaACT-6
contig00049 2637 3512 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00158 611 1441 blaOXA-1_1 0/0 100 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00041 22259 23119 blaTEM-1A_1 0/0 100 100.0 HM749966 blaTEM-1A Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00041 13923 14396 dfrA15_2 0/0 100 100.0 AF221900 dfrA15 Trimethoprim
contig00130 3188 3613 fosA_1 0/0 100 96.0 M85195 fosA Fosfomycin
contig00031 4402 5046 qnrB1_1 0/0 100 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00041 11686 12552 sul1_5 0/0 100 99.8 EU780013 sul1 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00153 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00158 1572 2171 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00008 76098 77243 ACT-6 0/0 100.0 91.9 FJ237366:40-1186 ACT-6 is a beta-lactamase found in Klebsiella pneumoniae carbapenem, cephalosporin, cephamycin, penam
contig00049 2637 3512 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00019 65188 66381 Enterobacter_cloacae_acrA 0/0 100.0 94.0 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00130 3188 3613 FosA2 0/0 100.0 91.8 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00158 611 1441 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00031 4366 5046 QnrB17 0/0 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00041 22259 23119 TEM-150 0/0 100.0 99.9 AM183304:208-1069 TEM-150 is a beta-lactamase found in Enterobacter spp. E. coli and Klebsiella pneumoniae. cephalosporin, monobactam, penam, penem
contig00041 13923 14396 dfrA15 0/0 100.0 100.0 KF534911:39-513 dfrA15 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig00091 1257 1608 ramA 0/0 93.9 90.9 JQ727668:0-375 RamA (resistance antibiotic multiple) is a positive regulator of AcrAB-TolC and leads to high level multidrug resistance in Klebsiella pneumoniae Salmonella enterica and Enterobacter aerugenes increasing the expression of both the mar operon as well as AcrAB. RamA also decreases OmpF expression. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00041 11686 12525 sul1 0/0 100.0 99.9 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00153 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00041 13030 13831 (AGly)aadA1-pm 0/0 96.5 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00008 76098 77243 (Bla)blaACT-6 0/0 100.0 91.9 FJ237366:41-1186 (Bla)blaACT-6 NA
contig00049 2637 3512 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00158 611 1441 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00041 22259 23119 (Bla)blaTEM-150 0/0 100.0 99.9 AM183304:209-1069 (Bla)blaTEM-150 NA
contig00130 3188 3613 (Fcyn)FosA2 0/0 100.0 91.8 EU487198:217-642 (Fcyn)FosA2 NA
contig00031 4366 5046 (Flq)qnrB1 0/0 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00041 11686 12525 (Sul)sul1 0/0 100.0 99.9 AF071413:6700-7539 (Sul)sul1 NA
contig00041 13923 14396 (Tmt)dfrA15b 0/0 100.0 99.2 AJ867237:177-650 (Tmt)dfrA15b NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00153 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00158 1572 2126 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00041 13030 13821 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00008 76098 77243 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00049 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00158 611 1441 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00041 22259 23119 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00041 13923 14396 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00130 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00031 4402 5046 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00041 11686 12525 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00153 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00158 1572 2126 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00041 13030 13821 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00008 76098 77243 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00049 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00158 611 1441 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00041 22259 23119 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00041 13923 14396 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00130 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00031 4402 5046 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00041 11686 12525 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
ID152
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00165 1696 2556 aac(3)-IIa_1 0/0 100 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00173 1540 2139 aac(6’)-Ib-cr_1 0/0 100 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00005 75808 76953 blaACT-6_1 0/0 100 91.9 FJ237366 blaACT-6
contig00031 2637 3512 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00173 579 1409 blaOXA-1_1 0/0 100 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00046 15465 16325 blaTEM-1A_1 0/0 100 100.0 HM749966 blaTEM-1A Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00046 7129 7602 dfrA15_2 0/0 100 100.0 AF221900 dfrA15 Trimethoprim
contig00141 3188 3613 fosA_1 0/0 100 96.0 M85195 fosA Fosfomycin
contig00088 4402 5046 qnrB1_1 0/0 100 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00046 4892 5758 sul1_5 0/0 100 99.8 EU780013 sul1 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00165 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00173 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00005 75808 76953 ACT-6 0/0 100.0 91.9 FJ237366:40-1186 ACT-6 is a beta-lactamase found in Klebsiella pneumoniae carbapenem, cephalosporin, cephamycin, penam
contig00031 2637 3512 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00017 65197 66390 Enterobacter_cloacae_acrA 0/0 100.0 94.0 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00141 3188 3613 FosA2 0/0 100.0 91.8 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00173 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00088 4366 5046 QnrB17 0/0 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00046 15465 16325 TEM-150 0/0 100.0 99.9 AM183304:208-1069 TEM-150 is a beta-lactamase found in Enterobacter spp. E. coli and Klebsiella pneumoniae. cephalosporin, monobactam, penam, penem
contig00046 7129 7602 dfrA15 0/0 100.0 100.0 KF534911:39-513 dfrA15 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig00105 4154 4505 ramA 0/0 93.9 90.9 JQ727668:0-375 RamA (resistance antibiotic multiple) is a positive regulator of AcrAB-TolC and leads to high level multidrug resistance in Klebsiella pneumoniae Salmonella enterica and Enterobacter aerugenes increasing the expression of both the mar operon as well as AcrAB. RamA also decreases OmpF expression. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00046 4892 5731 sul1 0/0 100.0 99.9 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00165 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00046 6236 7037 (AGly)aadA1-pm 0/0 96.5 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00005 75808 76953 (Bla)blaACT-6 0/0 100.0 91.9 FJ237366:41-1186 (Bla)blaACT-6 NA
contig00031 2637 3512 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00173 579 1409 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00046 15465 16325 (Bla)blaTEM-150 0/0 100.0 99.9 AM183304:209-1069 (Bla)blaTEM-150 NA
contig00141 3188 3613 (Fcyn)FosA2 0/0 100.0 91.8 EU487198:217-642 (Fcyn)FosA2 NA
contig00088 4366 5046 (Flq)qnrB1 0/0 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00046 4892 5731 (Sul)sul1 0/0 100.0 99.9 AF071413:6700-7539 (Sul)sul1 NA
contig00046 7129 7602 (Tmt)dfrA15b 0/0 100.0 99.2 AJ867237:177-650 (Tmt)dfrA15b NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00165 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00173 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00046 6236 7027 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00005 75808 76953 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00031 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00173 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00046 15465 16325 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00046 7129 7602 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00141 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00088 4402 5046 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00046 4892 5731 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00165 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00173 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00046 6236 7027 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00005 75808 76953 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00031 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00173 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00046 15465 16325 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00046 7129 7602 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00141 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00088 4402 5046 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00046 4892 5731 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
ID163I
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00648 136 996 aac(3)-IId_1 0/0 100.0 99.9 EU022314 aac(3)-IId Gentamicin, Tobramycin
contig01653 52 853 aadA2_1 0/0 97.9 99.9 NC_010870 aadA2 Streptomycin
contig00757 2711 3499 aadA5_1 0/0 100.0 100.0 AF137361 aadA5 Streptomycin
contig01238 1684 2548 blaCTX-M-15_1 0/0 98.7 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00785 2019 2879 blaLEN26_1 0/0 100.0 92.5 JQ067123 blaLEN26
contig01897 90 731 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig01653 1251 1747 dfrA12_8 0/0 99.8 100.0 AM040708 dfrA12 Trimethoprim
contig02251 568 1050 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00757 3630 4103 dfrA17_1 0/0 100.0 100.0 FJ460238 dfrA17 Trimethoprim
contig02125 41 550 dfrA8_1 0/0 100.0 100.0 U10186 dfrA8 Trimethoprim
contig00484 4869 5288 fosA_6 0/0 100.0 94.0 ACZD01000244 fosA Fosfomycin
contig00103 3280 4455 oqxA_1 0/0 100.0 96.8 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00103 104 3256 oqxB_1 0/0 100.0 97.7 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00765 178 834 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00757 1325 2191 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig02457 28 843 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00372 684 1868 tet(D)_1 0/0 100.0 100.0 AF467077 tet(D) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00648 136 996 AAC(3)-IId 0/0 100.0 99.9 EU022314.1:0-861 AAC(3)-IId is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig01238 1684 2548 CTX-M-15 0/0 98.7 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00149 6070 7263 Escherichia_coli_acrA 0/0 100.0 100.0 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00766 2681 3838 Escherichia_coli_ampH 0/0 100.0 100.0 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig01561 717 1049 Escherichia_coli_emrE 0/0 100.0 91.9 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00484 4869 5288 FosA5 0/0 100.0 91.9 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig01610 737 1150 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00925 928 1257 Klebsiella_pneumoniae_KpnF 0/0 100.0 92.4 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00425 3967 5139 Klebsiella_pneumoniae_KpnG 0/0 100.0 94.8 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig01858 1 1101 Klebsiella_pneumoniae_OmpK37 0/0 97.9 95.9 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00566 971 2164 Klebsiella_pneumoniae_acrA 2/3 99.8 91.5 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00785 2019 2879 LEN-26 0/0 100.0 92.6 JX124390.1:0-861 LEN-26 is a beta-lactamase found in Escherichia coli and Klebsiella pneumoniae. penam, penem
contig00765 178 834 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig01653 52 831 aadA2 0/0 100.0 99.9 AF156486:5012-5792 aadA2 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in K. pneumoniae Salmonella spp. Corynebacterium glutamicum C. freundii and Aeromonas spp. aminoglycoside
contig00757 2711 3499 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00149 7286 10435 acrB 0/0 100.0 100.0 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00355 342 3455 acrD 0/0 100.0 100.0 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig01972 1 1079 acrE 0/0 93.2 100.0 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00808 69 3173 acrF 0/0 100.0 100.0 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig02824 1 660 acrS 0/0 99.5 100.0 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig01220 527 1930 baeS 0/0 100.0 100.0 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig01897 90 731 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00254 5044 6417 cpxA 0/0 100.0 99.0 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig01653 1251 1747 dfrA12 0/0 99.8 100.0 GU585907.1:22103-21605 dfrA12 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig02251 568 1050 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00757 3630 4103 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig02125 41 550 dfrA8 0/0 100.0 100.0 KJ174469:710-1220 dfrA8 is a transposon-encoded dihydrofolate reductase found in Salmonella enterica diaminopyrimidine
contig00362 700 1872 emrA 0/0 100.0 100.0 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00362 1889 3427 emrB 0/0 100.0 100.0 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00362 43 573 emrR 0/0 100.0 99.8 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00960 1 1543 eptA 0/0 93.9 100.0 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig01774 38 652 evgA 0/0 100.0 100.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig01930 101 829 gadW 0/0 100.0 94.7 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00421 5510 6187 kdpE 0/0 100.0 100.0 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig01620 1280 1663 marA 0/0 100.0 100.0 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig01075 171 1418 mdtA 0/0 100.0 98.0 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00698 470 1627 mdtE 0/0 100.0 100.0 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00167 3448 4674 mdtG 0/0 100.0 99.3 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00426 5161 6369 mdtH 0/0 100.0 100.0 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00518 251 1462 mdtM 0/0 98.3 95.5 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00310 6527 7558 mdtN 0/0 100.0 100.0 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00076 11060 12526 mdtP 0/0 100.0 100.0 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00092 3886 4362 mphB 0/0 100.0 98.3 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00388 1436 3184 msbA 0/0 100.0 100.0 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00103 3280 4455 oqxA 0/0 100.0 96.8 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00103 104 3256 oqxB 0/0 100.0 97.7 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig01303 1350 2318 pmrF 0/0 100.0 100.0 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00757 1325 2164 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig02457 28 843 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00372 684 1868 tet(D) 0/0 100.0 100.0 AF467077.1:163-1348 TetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria. tetracycline
contig01792 146 1545 tolC 0/0 94.1 100.0 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00520 3845 5488 yojI 0/0 100.0 100.0 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00648 136 996 (AGly)aac3-IId 0/0 100.0 99.9 EU022314:1-861 (AGly)aac3-IId NA
contig01653 52 831 (AGly)aadA2 0/0 100.0 99.9 X68227:66-945 (AGly)aadA2 NA
contig00757 2711 3499 (AGly)aadA5 0/0 100.0 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00276 3885 5786 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100.0 100.0 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00100 7858 9018 (Bla)ampH 0/0 100.0 96.2 CP003785:4208384-4209544 (Bla)ampH NA
contig00766 2681 3838 (Bla)ampH_Ecoli 0/0 100.0 100.0 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig01238 1684 2548 (Bla)blaCTX-M-15 0/0 98.7 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00785 1989 2879 (Bla)blaLEN-24 0/0 100.0 91.2 AM850914:31-891 (Bla)blaLEN-24 NA
contig00484 4869 5288 (Fcyn)FosA5 0/0 100.0 91.9 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00103 3280 4455 (Flq)OqxA 0/0 100.0 96.8 EU370913:46652-47827 (Flq)OqxA NA
contig00103 104 3256 (Flq)OqxBgb 0/0 100.0 97.7 EU370913:47851-51003 (Flq)OqxBgb NA
contig00765 178 834 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig01897 90 731 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00757 1325 2164 (Sul)sul1 0/0 100.0 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig02457 28 843 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00372 684 1868 (Tet)tetD 0/0 100.0 100.0 AB089602:1521-2705 (Tet)tetD NA
contig01653 1251 1747 (Tmt)dfrA12 0/0 99.8 100.0 Z21672:310-807 (Tmt)dfrA12 NA
contig02251 568 1041 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
contig00757 3630 4103 (Tmt)dfrA17 0/0 100.0 100.0 AB126604:98-571 (Tmt)dfrA17 NA
contig02125 41 550 (Tmt)dfrA8 0/0 100.0 100.0 U10186:711-1220 (Tmt)dfrA8 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00648 136 996 aac(3)-IId 0/0 100.0 100.0 NG_047251.1 aminoglycoside N-acetyltransferase AAC(3)-IId GENTAMICIN
contig01653 52 843 aadA2 0/0 100.0 100.0 NG_047343.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA2 STREPTOMYCIN
contig00757 2711 3499 aadA5 0/0 100.0 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig01238 1684 2548 blaCTX-M-15 0/0 98.7 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00785 2019 2879 blaOKP-D-1 0/0 100.0 99.5 NG_067156.1 class A broad-spectrum beta-lactamase OKP-D-1 BETA-LACTAM
contig01897 90 731 catA2 0/0 100.0 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig01653 1251 1747 dfrA12 0/0 99.8 100.0 NG_047689.1 trimethoprim-resistant dihydrofolate reductase DfrA12 TRIMETHOPRIM
contig02251 568 1041 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00757 3630 4103 dfrA17 0/0 100.0 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig02125 41 550 dfrA8 0/0 100.0 100.0 NG_047741.1 trimethoprim-resistant dihydrofolate reductase DfrA8 TRIMETHOPRIM
contig00484 4869 5288 fosA_gen 0/0 100.0 94.0 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00103 3280 4455 oqxA6 0/0 100.0 97.2 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00103 104 3256 oqxB20 0/0 100.0 98.0 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00765 178 834 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00757 1325 2164 sul1 0/0 100.0 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig02457 28 843 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00372 684 1868 tet(D) 0/0 100.0 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00648 136 996 aac(3)-IId 0/0 100.0 100.0 NG_047251.1 aminoglycoside N-acetyltransferase AAC(3)-IId GENTAMICIN
contig01653 52 843 aadA2 0/0 100.0 100.0 NG_047343.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA2 STREPTOMYCIN
contig00757 2711 3499 aadA5 0/0 100.0 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig01238 1684 2548 blaCTX-M-15 0/0 98.7 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00785 2019 2879 blaOKP-D-1 0/0 100.0 99.5 NG_067156.1 class A broad-spectrum beta-lactamase OKP-D-1 BETA-LACTAM
contig01897 90 731 catA2 0/0 100.0 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig01653 1251 1747 dfrA12 0/0 99.8 100.0 NG_047689.1 trimethoprim-resistant dihydrofolate reductase DfrA12 TRIMETHOPRIM
contig02251 568 1041 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00757 3630 4103 dfrA17 0/0 100.0 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig02125 41 550 dfrA8 0/0 100.0 100.0 NG_047741.1 trimethoprim-resistant dihydrofolate reductase DfrA8 TRIMETHOPRIM
contig00484 4869 5288 fosA_gen 0/0 100.0 94.0 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00103 3280 4455 oqxA6 0/0 100.0 97.2 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00103 104 3256 oqxB20 0/0 100.0 98.0 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00765 178 834 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00757 1325 2164 sul1 0/0 100.0 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig02457 28 843 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00372 684 1868 tet(D) 0/0 100.0 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
ID187CT
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00067 16246 17049 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00067 15410 16246 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00067 10132 11007 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00270 3497 4363 blaSHV-187_1 0/0 100.0 99.3 LN515533 blaSHV-187
contig00067 13829 14689 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00402 183 665 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00077 59 470 fosA_3 0/0 98.1 100.0 ACWO01000079 fosA Fosfomycin
contig00070 6209 7384 oqxA_1 0/0 100.0 99.4 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00070 3033 6185 oqxB_1 0/0 100.0 99.0 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00067 4835 5491 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00067 17110 17925 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00067 16246 17049 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00067 15410 16246 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00067 10132 11007 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00077 59 471 FosA6 0/0 98.3 99.8 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00158 6554 6916 Klebsiella_pneumoniae_KpnE 0/0 100.0 100.0 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00158 6238 6567 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.4 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00187 4027 5199 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00105 1856 2980 Klebsiella_pneumoniae_OmpK37 0/0 100.0 99.1 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00041 3170 4363 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00067 4835 5491 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00270 3497 4363 SHV-187 0/0 100.0 99.3 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00067 13829 14689 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00402 183 665 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00070 6209 7384 oqxA 0/0 100.0 99.4 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00070 3033 6185 oqxB 0/0 100.0 99.0 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00067 17110 17925 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00067 16246 17049 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00067 15410 16246 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00103 6711 7871 (Bla)ampH 0/0 100.0 99.2 CP003785:4208384-4209544 (Bla)ampH NA
contig00067 10132 11007 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00270 3497 4363 (Bla)blaSHV-187 0/0 100.0 99.3 LN515533:1-867 (Bla)blaSHV-187 NA
contig00067 13829 14689 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00077 59 471 (Fcyn)FosA6 0/0 98.3 99.8 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00070 6209 7384 (Flq)OqxA 0/0 100.0 99.4 EU370913:46652-47827 (Flq)OqxA NA
contig00070 3033 6185 (Flq)OqxBgb 0/0 100.0 99.0 EU370913:47851-51003 (Flq)OqxBgb NA
contig00067 4835 5491 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00067 17110 17925 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00402 183 656 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00067 16246 17073 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 15410 16246 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00067 10132 11007 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00270 3503 4363 blaSHV-215 0/0 100.0 99.8 NG_062287.1 class A beta-lactamase SHV-215 BETA-LACTAM
contig00067 13829 14689 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00402 183 656 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00077 59 470 fosA_gen 0/0 98.1 100.0 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00070 6209 7384 oqxA6 0/0 100.0 99.8 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00070 3033 6185 oqxB19 0/0 100.0 99.3 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00067 4835 5491 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00067 17110 17925 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00067 16246 17073 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 15410 16246 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00067 10132 11007 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00270 3503 4363 blaSHV-215 0/0 100.0 99.8 NG_062287.1 class A beta-lactamase SHV-215 BETA-LACTAM
contig00067 13829 14689 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00402 183 656 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00077 59 470 fosA_gen 0/0 98.1 100.0 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00070 6209 7384 oqxA6 0/0 100.0 99.8 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00070 3033 6185 oqxB19 0/0 100.0 99.3 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00067 4835 5491 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00067 17110 17925 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
ID188
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00230 1974 2810 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00066 7458 8333 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00143 7354 8220 blaSHV-187_1 0/0 100.0 99.5 LN515533 blaSHV-187
contig00066 3776 4636 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00230 3160 3642 dfrA14_5 0/0 100.0 99.8 DQ388123 dfrA14 Trimethoprim
contig00134 599 1018 fosA6_1 0/0 97.0 99.5 KU254579 fosA6 Fosfomycin
contig00092 12283 13458 oqxA_1 0/0 100.0 99.2 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00092 9107 12259 oqxB_1 0/0 100.0 99.1 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00066 12974 13630 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00230 4242 5057 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00066 1676 2922 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00230 1974 2810 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00066 7458 8333 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00134 599 1018 FosA6 0/0 100.0 99.5 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00035 37659 38021 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.2 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00035 37343 37672 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.7 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00164 4015 5187 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.4 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00017 44947 46101 Klebsiella_pneumoniae_OmpK37 7/32 99.9 95.0 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00007 8148 9341 Klebsiella_pneumoniae_acrA 2/3 99.8 97.7 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00066 12974 13630 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00143 7354 8220 SHV-187 0/0 100.0 99.5 LN515533:0-867 From the Lahey list of beta-lactamases. carbapenem, cephalosporin, penam
contig00066 3776 4636 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00230 3160 3642 dfrA14 0/0 100.0 100.0 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00092 12283 13458 oqxA 0/0 100.0 99.2 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00092 9107 12259 oqxB 0/0 100.0 99.1 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00230 4242 5057 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00066 1676 2922 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00230 1974 2810 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00059 18623 19783 (Bla)ampH 0/0 100 99.2 CP003785:4208384-4209544 (Bla)ampH NA
contig00066 7458 8333 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00143 7354 8220 (Bla)blaSHV-187 0/0 100 99.5 LN515533:1-867 (Bla)blaSHV-187 NA
contig00066 3776 4636 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00134 599 1018 (Fcyn)FosA6 0/0 100 99.5 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00092 12283 13458 (Flq)OqxA 0/0 100 99.2 EU370913:46652-47827 (Flq)OqxA NA
contig00092 9107 12259 (Flq)OqxBgb 0/0 100 99.1 EU370913:47851-51003 (Flq)OqxBgb NA
contig00066 12974 13630 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00230 4242 5057 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00066 1648 2922 (Tet)tetA 0/0 100 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00066 2953 3603 (Tet)tetR 0/0 100 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00230 3160 3633 (Tmt)dfrA14 0/0 100 99.8 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00230 1974 2810 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00066 7458 8333 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00143 7354 8220 blaSHV-187 0/0 100 99.5 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00066 3776 4636 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00230 3160 3633 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00134 599 1018 fosA6 0/0 100 99.5 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00092 12283 13458 oqxA6 0/0 100 99.6 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00092 9107 12259 oqxB22 0/0 100 99.5 NG_050441.1 multidrug efflux RND transporter permease subunit OqxB22 PHENICOL, QUINOLONE
contig00066 12974 13630 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00230 4242 5057 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00066 1648 2847 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00230 1974 2810 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00066 7458 8333 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00143 7354 8220 blaSHV-187 0/0 100 99.5 NG_050053.1 class A beta-lactamase SHV-187 BETA-LACTAM
contig00066 3776 4636 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00230 3160 3633 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00134 599 1018 fosA6 0/0 100 99.5 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00092 12283 13458 oqxA6 0/0 100 99.6 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00092 9107 12259 oqxB22 0/0 100 99.5 NG_050441.1 multidrug efflux RND transporter permease subunit OqxB22 PHENICOL, QUINOLONE
contig00066 12974 13630 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00230 4242 5057 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00066 1648 2847 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ID198
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00355 2435 3295 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00422 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00067 1407 2210 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00067 571 1407 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00459 179 1054 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00422 578 1408 blaOXA-1_1 0/0 100.0 99.9 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00424 109 969 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00225 4601 5083 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00336 3325 3744 fosA6_1 0/0 97.0 99.8 KU254579 fosA6 Fosfomycin
contig00037 6337 7512 oqxA_1 0/0 100.0 98.9 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00037 3161 6313 oqxB_1 0/0 100.0 98.6 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00194 746 1390 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00067 2271 3086 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00357 1712 2958 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00355 2435 3295 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00422 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00067 1407 2210 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00067 571 1407 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00459 179 1054 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00336 3325 3744 FosA6 0/0 100.0 99.8 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00165 6539 6901 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.5 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00165 6223 6552 Klebsiella_pneumoniae_KpnF 0/0 100.0 100.0 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00177 4031 5203 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00279 971 2125 Klebsiella_pneumoniae_OmpK37 7/32 99.9 95.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00045 3115 4308 Klebsiella_pneumoniae_acrA 2/3 99.8 97.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00422 578 1408 OXA-1 0/0 100.0 99.9 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00194 746 1425 QnrB17 1/1 99.8 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00424 109 969 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00225 4601 5083 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00037 6337 7512 oqxA 0/0 100.0 98.9 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00037 3161 6313 oqxB 0/0 100.0 98.6 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00067 2271 3086 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00357 1712 2958 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00355 2435 3295 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00067 1407 2210 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00067 571 1407 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00111 11436 12596 (Bla)ampH 0/0 100.0 99.1 CP003785:4208384-4209544 (Bla)ampH NA
contig00459 179 1054 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00422 578 1408 (Bla)blaOXA-1 0/0 100.0 99.9 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00424 109 969 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00336 3325 3744 (Fcyn)FosA6 0/0 100.0 99.8 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00037 6337 7512 (Flq)OqxA 0/0 100.0 98.9 EU370913:46652-47827 (Flq)OqxA NA
contig00037 3161 6313 (Flq)OqxBgb 0/0 100.0 98.6 EU370913:47851-51003 (Flq)OqxBgb NA
contig00194 746 1425 (Flq)qnrB1 1/1 99.8 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00067 2271 3086 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00357 1684 2958 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00225 4601 5074 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00355 2435 3295 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00422 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00067 1407 2234 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 571 1407 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00459 179 1054 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00422 578 1408 blaOXA-1 0/0 100 99.9 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00424 109 969 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00225 4601 5074 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00336 3325 3744 fosA6 0/0 100 99.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00037 6337 7512 oqxA5 0/0 100 99.4 NG_050423.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA5 PHENICOL, QUINOLONE
contig00037 3161 6313 oqxB19 0/0 100 99.4 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00194 746 1390 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00067 2271 3086 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00357 1684 2883 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00355 2435 3295 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00422 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00067 1407 2234 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 571 1407 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00459 179 1054 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00422 578 1408 blaOXA-1 0/0 100 99.9 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00424 109 969 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00225 4601 5074 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00336 3325 3744 fosA6 0/0 100 99.8 NG_051497.1 fosfomycin resistance glutathione transferase FosA6 FOSFOMYCIN
contig00037 6337 7512 oqxA5 0/0 100 99.4 NG_050423.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA5 PHENICOL, QUINOLONE
contig00037 3161 6313 oqxB19 0/0 100 99.4 NG_050437.1 multidrug efflux RND transporter permease subunit OqxB19 PHENICOL, QUINOLONE
contig00194 746 1390 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00067 2271 3086 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00357 1684 2883 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ID260
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00054 21369 22172 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00054 20533 21369 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00054 15255 16130 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00267 1122 1981 blaOKP-B-16_1 0/0 99.9 99.8 AM850918 blaOKP-B-16
contig00054 18952 19812 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00425 91 732 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00412 183 665 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00144 10718 11137 fosA_6 0/0 100.0 93.3 ACZD01000244 fosA Fosfomycin
contig00012 46282 47457 oqxA_1 0/0 100.0 93.9 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00012 47481 50633 oqxB_1 0/0 100.0 95.6 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00054 9958 10614 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00298 28 843 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00155 648 1894 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00054 21369 22172 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00054 20533 21369 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00054 15255 16130 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00144 10718 11137 FosA6 0/0 100.0 92.9 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00132 8171 8500 Klebsiella_pneumoniae_KpnF 0/0 100.0 92.7 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00187 4019 5191 Klebsiella_pneumoniae_KpnG 0/0 100.0 94.6 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00064 1919 3043 Klebsiella_pneumoniae_OmpK37 0/0 100.0 92.4 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00006 8317 9510 Klebsiella_pneumoniae_acrA 2/3 99.8 95.1 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00267 1122 1981 OKP-B-5 0/0 99.9 99.8 AM850918:24-885 OKP-B-5 is a beta-lactamase found in Klebsiella pneumoniae cephalosporin, penam
contig00054 9958 10614 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00054 18952 19812 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00425 91 732 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00412 183 665 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00012 46282 47457 oqxA 0/0 100.0 93.9 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00012 47481 50633 oqxB 0/0 100.0 95.6 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00298 28 843 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00155 648 1894 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00054 21369 22172 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00054 20533 21369 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00141 5319 6479 (Bla)ampH 0/0 100.0 96.0 CP003785:4208384-4209544 (Bla)ampH NA
contig00054 15255 16130 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00267 1122 1981 (Bla)blaOKP-B-5 0/0 99.9 99.8 AY512506:68-928 (Bla)blaOKP-B-5 NA
contig00054 18952 19812 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00144 10718 11137 (Fcyn)FosA6 0/0 100.0 92.9 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00012 46282 47457 (Flq)OqxA 0/0 100.0 93.9 EU370913:46652-47827 (Flq)OqxA NA
contig00012 47481 50633 (Flq)OqxBgb 0/0 100.0 95.6 EU370913:47851-51003 (Flq)OqxBgb NA
contig00054 9958 10614 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00425 91 732 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00298 28 843 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00155 648 1922 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00155 1 617 (Tet)tetR 0/0 94.8 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00412 183 656 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00054 21369 22196 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00054 20533 21369 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00054 15255 16130 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00267 1121 1981 blaOKP-B-45 0/0 100 99.9 NG_067154.1 class A broad-spectrum beta-lactamase OKP-B-45 BETA-LACTAM
contig00054 18952 19812 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00425 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00412 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00144 10718 11137 fosA_gen 0/0 100 93.3 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00012 46282 47457 oqxA10 0/0 100 94.1 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00012 47481 50633 oqxB11 0/0 100 96.2 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00054 9958 10614 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00298 28 843 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00155 723 1922 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00054 21369 22196 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00054 20533 21369 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00054 15255 16130 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00267 1121 1981 blaOKP-B-45 0/0 100 99.9 NG_067154.1 class A broad-spectrum beta-lactamase OKP-B-45 BETA-LACTAM
contig00054 18952 19812 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00425 91 732 catA2 0/0 100 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00412 183 656 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00144 10718 11137 fosA_gen 0/0 100 93.3 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00012 46282 47457 oqxA10 0/0 100 94.1 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00012 47481 50633 oqxB11 0/0 100 96.2 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00054 9958 10614 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00298 28 843 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00155 723 1922 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ORTHO042EI
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00217 1696 2556 aac(3)-IIa_1 0/0 100 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00234 1540 2139 aac(6’)-Ib-cr_1 0/0 100 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00003 76106 77251 blaACT-6_1 0/0 100 91.9 FJ237366 blaACT-6
contig00097 2637 3512 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00234 579 1409 blaOXA-1_1 0/0 100 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00037 14325 15185 blaTEM-1A_1 0/0 100 100.0 HM749966 blaTEM-1A Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00037 5989 6462 dfrA15_2 0/0 100 100.0 AF221900 dfrA15 Trimethoprim
contig00174 3188 3613 fosA_1 0/0 100 96.0 M85195 fosA Fosfomycin
contig00032 4404 5048 qnrB1_1 0/0 100 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00037 3752 4618 sul1_5 0/0 100 99.8 EU780013 sul1 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00217 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00234 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00003 76106 77251 ACT-6 0/0 100.0 91.9 FJ237366:40-1186 ACT-6 is a beta-lactamase found in Klebsiella pneumoniae carbapenem, cephalosporin, cephamycin, penam
contig00097 2637 3512 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00074 14775 15968 Enterobacter_cloacae_acrA 0/0 100.0 94.0 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00174 3188 3613 FosA2 0/0 100.0 91.8 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00234 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00032 4368 5048 QnrB17 0/0 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00037 14325 15185 TEM-150 0/0 100.0 99.9 AM183304:208-1069 TEM-150 is a beta-lactamase found in Enterobacter spp. E. coli and Klebsiella pneumoniae. cephalosporin, monobactam, penam, penem
contig00037 5989 6462 dfrA15 0/0 100.0 100.0 KF534911:39-513 dfrA15 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
contig00143 4082 4433 ramA 0/0 93.9 90.9 JQ727668:0-375 RamA (resistance antibiotic multiple) is a positive regulator of AcrAB-TolC and leads to high level multidrug resistance in Klebsiella pneumoniae Salmonella enterica and Enterobacter aerugenes increasing the expression of both the mar operon as well as AcrAB. RamA also decreases OmpF expression. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00037 3752 4591 sul1 0/0 100.0 99.9 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00217 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00037 5096 5897 (AGly)aadA1-pm 0/0 96.5 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00003 76106 77251 (Bla)blaACT-6 0/0 100.0 91.9 FJ237366:41-1186 (Bla)blaACT-6 NA
contig00097 2637 3512 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00234 579 1409 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00037 14325 15185 (Bla)blaTEM-150 0/0 100.0 99.9 AM183304:209-1069 (Bla)blaTEM-150 NA
contig00174 3188 3613 (Fcyn)FosA2 0/0 100.0 91.8 EU487198:217-642 (Fcyn)FosA2 NA
contig00032 4368 5048 (Flq)qnrB1 0/0 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00037 3752 4591 (Sul)sul1 0/0 100.0 99.9 AF071413:6700-7539 (Sul)sul1 NA
contig00037 5989 6462 (Tmt)dfrA15b 0/0 100.0 99.2 AJ867237:177-650 (Tmt)dfrA15b NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00217 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00234 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00037 5096 5887 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00003 76106 77251 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00097 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00234 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00037 14325 15185 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00037 5989 6462 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00174 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00032 4404 5048 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00037 3752 4591 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00217 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00234 1540 2094 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00037 5096 5887 aadA1 0/0 100 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00003 76106 77251 blaACT-63 0/0 100 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00097 2637 3512 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00234 579 1409 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00037 14325 15185 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00037 5989 6462 dfrA15 0/0 100 100.0 NG_047702.1 trimethoprim-resistant dihydrofolate reductase DfrA15 TRIMETHOPRIM
contig00174 3188 3613 fosA 0/0 100 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00032 4404 5048 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00037 3752 4591 sul1 0/0 100 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
ORTHO053E
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00276 1594 2430 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00054 7984 8859 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00054 5342 6202 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00276 2780 3262 dfrA14_5 0/0 100.0 99.8 DQ388123 dfrA14 Trimethoprim
contig00142 10744 11163 fosA_6 0/0 100.0 92.6 ACZD01000244 fosA Fosfomycin
contig00015 41702 42877 oqxA_1 0/0 100.0 94.1 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00015 42901 46053 oqxB_1 0/0 100.0 95.4 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00054 13500 14156 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00276 3862 4677 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00054 3242 4488 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00276 1594 2430 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00054 7984 8859 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00142 10744 11163 FosA5 0/0 100.0 92.4 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig00133 8200 8529 Klebsiella_pneumoniae_KpnF 0/0 100.0 93.3 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00077 1890 3014 Klebsiella_pneumoniae_OmpK37 0/0 100.0 92.6 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00044 3176 4369 Klebsiella_pneumoniae_acrA 2/3 99.8 95.1 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00054 13500 14156 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00054 5342 6202 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00276 2780 3262 dfrA14 0/0 100.0 100.0 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00015 41702 42877 oqxA 0/0 100.0 94.1 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00015 42901 46053 oqxB 0/0 100.0 95.4 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00276 3862 4677 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00054 3242 4488 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00276 1594 2430 (AGly)strB 0/0 100 100.0 FJ474091:264-1100 (AGly)strB NA
contig00113 5324 6484 (Bla)ampH 0/0 100 95.8 CP003785:4208384-4209544 (Bla)ampH NA
contig00054 7984 8859 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00054 5342 6202 (Bla)blaTEM-105 0/0 100 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00142 10744 11163 (Fcyn)FosA5 0/0 100 92.4 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00015 41702 42877 (Flq)OqxA 0/0 100 94.1 EU370913:46652-47827 (Flq)OqxA NA
contig00015 42901 46053 (Flq)OqxBgb 0/0 100 95.4 EU370913:47851-51003 (Flq)OqxBgb NA
contig00054 13500 14156 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00276 3862 4677 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00054 3214 4488 (Tet)tetA 0/0 100 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00054 4519 5169 (Tet)tetR 0/0 100 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00276 2780 3253 (Tmt)dfrA14 0/0 100 99.8 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00276 1594 2430 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00054 7984 8859 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00054 5342 6202 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00276 2780 3253 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00142 10744 11163 fosA_gen 0/0 100 92.6 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00015 41702 42877 oqxA10 0/0 100 94.6 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00015 42901 46053 oqxB11 0/0 100 96.0 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00054 13500 14156 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00276 3862 4677 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00054 3214 4413 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00276 1594 2430 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00054 7984 8859 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00054 5342 6202 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00276 2780 3253 dfrA14 0/0 100 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00142 10744 11163 fosA_gen 0/0 100 92.6 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00015 41702 42877 oqxA10 0/0 100 94.6 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00015 42901 46053 oqxB11 0/0 100 96.0 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00054 13500 14156 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00276 3862 4677 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00054 3214 4413 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ORTHO066E
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00846 1746 2606 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00929 1540 2139 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00674 758 1594 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00106 2995 4140 blaACT-6_1 0/0 100.0 91.9 FJ237366 blaACT-6
contig00114 1748 2623 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00929 579 1409 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig01227 109 920 blaTEM-1B_1 0/0 94.3 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00674 1944 2426 dfrA14_5 0/0 100.0 99.8 DQ388123 dfrA14 Trimethoprim
contig00585 3188 3613 fosA_1 0/0 100.0 96.0 M85195 fosA Fosfomycin
contig00256 10713 11132 fosA_6 0/0 100.0 92.6 ACZD01000244 fosA Fosfomycin
contig00493 2502 5654 oqxB_1 0/0 100.0 95.4 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00146 3627 4271 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00114 7264 7920 qnrS1_1 0/0 100.0 100.0 AB187515 qnrS1 Ciprofloxacin
contig00641 1588 2454 sul1_5 0/0 100.0 99.8 EU780013 sul1 Sulfamethoxazole
contig00674 3026 3841 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00201 11706 12952 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00846 1746 2606 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00929 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00106 2995 4140 ACT-6 0/0 100.0 91.9 FJ237366:40-1186 ACT-6 is a beta-lactamase found in Klebsiella pneumoniae carbapenem, cephalosporin, cephamycin, penam
contig00674 758 1594 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00114 1748 2623 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00242 3244 4437 Enterobacter_cloacae_acrA 0/0 100.0 94.0 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00585 3188 3613 FosA2 0/0 100.0 91.8 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00256 10713 11132 FosA5 0/0 100.0 92.4 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig00484 2109 2438 Klebsiella_pneumoniae_KpnF 0/0 100.0 93.3 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00115 1081 2205 Klebsiella_pneumoniae_OmpK37 0/0 100.0 92.6 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00263 3136 4329 Klebsiella_pneumoniae_acrA 2/3 99.8 95.1 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00929 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00146 3591 4271 QnrB17 0/0 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00114 7264 7920 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig01227 109 920 TEM-206 0/0 94.3 100.0 KC783461:0-861 From the Lahey list of beta-lactamases. Not yet released. cephalosporin, monobactam, penam, penem
contig00674 1944 2426 dfrA14 0/0 100.0 100.0 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00493 2502 5654 oqxB 0/0 100.0 95.4 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00369 4018 4369 ramA 0/0 93.9 90.9 JQ727668:0-375 RamA (resistance antibiotic multiple) is a positive regulator of AcrAB-TolC and leads to high level multidrug resistance in Klebsiella pneumoniae Salmonella enterica and Enterobacter aerugenes increasing the expression of both the mar operon as well as AcrAB. RamA also decreases OmpF expression. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00641 1615 2454 sul1 0/0 100.0 99.9 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00674 3026 3841 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00201 11706 12952 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00846 1746 2606 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00641 309 1110 (AGly)aadA1-pm 0/0 96.5 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00674 758 1594 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00248 5304 6464 (Bla)ampH 0/0 100.0 95.8 CP003785:4208384-4209544 (Bla)ampH NA
contig00106 2995 4140 (Bla)blaACT-6 0/0 100.0 91.9 FJ237366:41-1186 (Bla)blaACT-6 NA
contig00114 1748 2623 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00929 579 1409 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig01227 109 920 (Bla)blaTEM-206 0/0 94.3 100.0 KC783461:1-861 (Bla)blaTEM-206 NA
contig00585 3188 3613 (Fcyn)FosA2 0/0 100.0 91.8 EU487198:217-642 (Fcyn)FosA2 NA
contig00256 10713 11132 (Fcyn)FosA5 0/0 100.0 92.4 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00493 2502 5654 (Flq)OqxBgb 0/0 100.0 95.4 EU370913:47851-51003 (Flq)OqxBgb NA
contig00114 7264 7920 (Flq)qnr-S1 0/0 100.0 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00146 3591 4271 (Flq)qnrB1 0/0 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00641 1615 2454 (Sul)sul1 0/0 100.0 99.9 AF071413:6700-7539 (Sul)sul1 NA
contig00674 3026 3841 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00201 11678 12952 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00201 12983 13633 (Tet)tetR 0/0 100.0 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00674 1944 2417 (Tmt)dfrA14 0/0 100.0 99.8 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00846 1746 2606 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00929 1540 2094 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00641 319 1110 aadA1 0/0 100.0 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00674 758 1594 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00106 2995 4140 blaACT-63 0/0 100.0 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00114 1748 2623 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00929 579 1409 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig01227 109 920 blaTEM-1 0/0 94.3 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00674 1944 2417 dfrA14 0/0 100.0 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00585 3188 3613 fosA 0/0 100.0 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00256 10713 11132 fosA_gen 0/0 100.0 92.6 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00493 2502 5654 oqxB11 0/0 100.0 96.0 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00146 3627 4271 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00114 7264 7920 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00641 1615 2454 sul1 0/0 100.0 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00674 3026 3841 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00201 11678 12877 tet(A) 0/0 100.0 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00846 1746 2606 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00929 1540 2094 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00641 319 1110 aadA1 0/0 100.0 99.9 NG_052266.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00674 758 1594 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00106 2995 4140 blaACT-63 0/0 100.0 99.4 NG_061406.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-63 CEPHALOSPORIN
contig00114 1748 2623 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00929 579 1409 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig01227 109 920 blaTEM-1 0/0 94.3 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00674 1944 2417 dfrA14 0/0 100.0 100.0 NG_047696.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00585 3188 3613 fosA 0/0 100.0 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00256 10713 11132 fosA_gen 0/0 100.0 92.6 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00493 2502 5654 oqxB11 0/0 100.0 96.0 NG_050429.1 multidrug efflux RND transporter permease subunit OqxB11 PHENICOL, QUINOLONE
contig00146 3627 4271 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00114 7264 7920 qnrS1 0/0 100.0 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00641 1615 2454 sul1 0/0 100.0 99.9 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00674 3026 3841 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00201 11678 12877 tet(A) 0/0 100.0 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
ORTHO067E
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00421 1694 2554 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00454 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00079 3407 4210 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00079 2571 3407 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00002 576 1451 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00454 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00079 990 1850 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00219 4601 5083 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00116 103 522 fosA_3 0/0 100.0 99.8 ACWO01000079 fosA Fosfomycin
contig00056 6720 7895 oqxA_1 0/0 100.0 99.4 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00056 3544 6696 oqxB_1 0/0 100.0 98.7 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00344 818 1462 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00079 4271 5086 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00366 1711 2957 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
contig00415 778 1962 tet(D)_1 0/0 100.0 100.0 AF467077 tet(D) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00421 1694 2554 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00454 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00079 3407 4210 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00079 2571 3407 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00002 576 1451 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00116 103 522 FosA6 0/0 100.0 99.5 KU254579.1:59421-59841 fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. fosfomycin
contig00152 6554 6916 Klebsiella_pneumoniae_KpnE 0/0 100.0 99.2 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00152 6238 6567 Klebsiella_pneumoniae_KpnF 0/0 100.0 99.4 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00180 3925 5097 Klebsiella_pneumoniae_KpnG 0/0 100.0 99.3 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00280 1031 2185 Klebsiella_pneumoniae_OmpK37 5/30 100.0 94.7 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00033 3123 4316 Klebsiella_pneumoniae_acrA 2/3 99.8 97.7 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00454 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00344 818 1497 QnrB17 1/1 99.8 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00079 990 1850 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00219 4601 5083 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00056 6720 7895 oqxA 0/0 100.0 99.4 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00056 3544 6696 oqxB 0/0 100.0 98.7 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00079 4271 5086 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00366 1711 2957 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
contig00415 778 1962 tet(D) 0/0 100.0 100.0 AF467077.1:163-1348 TetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00421 1694 2554 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00079 3407 4210 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00079 2571 3407 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00064 11387 12547 (Bla)ampH 0/0 100.0 99.1 CP003785:4208384-4209544 (Bla)ampH NA
contig00002 576 1451 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00454 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00079 990 1850 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00116 103 522 (Fcyn)FosA6 0/0 100.0 99.5 KU254579:59422-59841 (Fcyn)FosA6 NA
contig00056 6720 7895 (Flq)OqxA 0/0 100.0 99.4 EU370913:46652-47827 (Flq)OqxA NA
contig00056 3544 6696 (Flq)OqxBgb 0/0 100.0 98.7 EU370913:47851-51003 (Flq)OqxBgb NA
contig00344 818 1497 (Flq)qnrB1 1/1 99.8 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00079 4271 5086 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00366 1683 2957 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00415 778 1962 (Tet)tetD 0/0 100.0 100.0 AB089602:1521-2705 (Tet)tetD NA
contig00219 4601 5074 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00421 1694 2554 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00454 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00079 3407 4234 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00079 2571 3407 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00002 576 1451 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00454 578 1408 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00079 990 1850 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00219 4601 5074 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00116 103 522 fosA_gen 0/0 100 99.8 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00056 6720 7895 oqxA10 0/0 100 99.7 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00056 3544 6696 oqxB20 0/0 100 99.3 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00344 818 1462 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00079 4271 5086 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00366 1683 2882 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
contig00415 778 1962 tet(D) 0/0 100 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00421 1694 2554 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00454 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00079 3407 4234 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00079 2571 3407 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00002 576 1451 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00454 578 1408 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00079 990 1850 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00219 4601 5074 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00116 103 522 fosA_gen 0/0 100 99.8 NG_047884.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00056 6720 7895 oqxA10 0/0 100 99.7 NG_050418.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 PHENICOL, QUINOLONE
contig00056 3544 6696 oqxB20 0/0 100 99.3 NG_050439.1 multidrug efflux RND transporter permease subunit OqxB20 PHENICOL, QUINOLONE
contig00344 818 1462 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00079 4271 5086 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00366 1683 2882 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
contig00415 778 1962 tet(D) 0/0 100 99.9 NG_048184.1 tetracycline efflux MFS transporter Tet(D) TETRACYCLINE
ORTHO08HWII
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00625 672 1164 ARR-3_4 0/0 90.8 99.2 FM207631 ARR-3
contig00548 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00625 1221 1807 aac(6’)-Ib-cr_1 0/0 97.8 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00823 1 833 aadA16_1 0/0 98.5 99.6 EU675686 aadA16 Streptomycin
contig00189 5268 6143 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00673 579 1409 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00189 1586 2446 blaTEM-1C_1 0/0 100.0 100.0 FJ560503 blaTEM-1C Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00691 89 730 catA2_1 0/0 100.0 96.1 X53796 catA2 Chloramphenicol
contig00625 66 539 dfrA27_1 0/0 100.0 100.0 FJ459817 dfrA27 Trimethoprim
contig00445 3281 3666 fosA_6 0/0 91.9 93.5 ACZD01000244 fosA Fosfomycin
contig00092 10265 11440 oqxA_1 0/0 100.0 96.0 EU370913 oqxA Nalidixic_acid, Ciprofloxacin
contig00092 7089 10241 oqxB_1 0/0 100.0 97.7 EU370913 oqxB Nalidixic_acid, Ciprofloxacin
contig00333 19 663 qnrB6_2 0/0 100.0 100.0 EF523819 qnrB6 Ciprofloxacin
contig00333 4074 4940 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00386 3442 4257 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00548 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00625 1221 1807 AAC(6’)-Ib-cr 0/0 97.8 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00189 5268 6143 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00445 3281 3666 FosA5 0/0 91.9 92.8 KP143090.1:1619-1199 fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin fosfomycin
contig00330 2318 2680 Klebsiella_pneumoniae_KpnE 0/0 100.0 91.7 AP006725.1:2483889-2484252 KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00330 2002 2331 Klebsiella_pneumoniae_KpnF 0/0 100.0 94.8 AP006725.1:2484238-2484568 KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline
contig00255 3946 5118 Klebsiella_pneumoniae_KpnG 0/0 100.0 94.6 ACWO01000051.1:22092-23265 KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide
contig00467 2364 3488 Klebsiella_pneumoniae_OmpK37 0/0 100.0 95.6 AJ011502.1:300-1425 Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. carbapenem, cephalosporin, cephamycin, monobactam, penam, penem
contig00021 3004 4197 Klebsiella_pneumoniae_acrA 2/3 99.8 94.9 AJ318073.1:793-1990 AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00673 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00333 1 663 QnrB17 0/0 97.4 99.8 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00189 1586 2446 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00823 1 833 aadA16 0/0 98.5 99.6 EU675686:3196-4042 aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae aminoglycoside
contig00625 672 1124 arr-3 0/0 100.0 100.0 EU675686:1956-2409 arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis rifamycin
contig00691 89 730 catII_from_Escherichia_coli_K-12 0/0 100.0 96.1 X53796.1:186-828 catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. phenicol
contig00625 66 539 dfrA27 0/0 100.0 100.0 KP076293.1:2347-2821 A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae diaminopyrimidine
contig00092 10265 11440 oqxA 0/0 100.0 96.0 EU370913.1:46651-47827 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00092 7089 10241 oqxB 0/0 100.0 97.7 EU370913.1:47850-51003 RND efflux pump conferring resistance to fluoroquinolone diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline
contig00333 4074 4913 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00386 3442 4257 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00548 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00625 1221 1807 (AGly)aac6-Ib 0/0 96.9 99.5 M21682:380-985 (AGly)aac6-Ib NA
contig00823 1 833 (AGly)aadA16 0/0 98.5 99.6 EU675686:3197-4042 (AGly)aadA16 NA
contig00226 1508 2668 (Bla)ampH 0/0 100.0 97.8 CP003785:4208384-4209544 (Bla)ampH NA
contig00189 5268 6143 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00673 579 1409 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00189 1586 2446 (Bla)blaTEM-135 0/0 100.0 99.9 JQ060998:1-861 (Bla)blaTEM-135 NA
contig00445 3281 3666 (Fcyn)FosA5 0/0 91.9 92.8 KP143090:1200-1619 (Fcyn)FosA5 NA
contig00092 10265 11440 (Flq)OqxA 0/0 100.0 96.0 EU370913:46652-47827 (Flq)OqxA NA
contig00092 7089 10241 (Flq)OqxBgb 0/0 100.0 97.7 EU370913:47851-51003 (Flq)OqxBgb NA
contig00333 1 663 (Flq)qnrB17 0/0 97.4 99.8 AM919398:1-681 (Flq)qnrB17 NA
contig00691 89 730 (Phe)catA2 0/0 100.0 96.1 X53796:187-903 (Phe)catA2 NA
contig00625 672 1124 (Rif)arr3 0/0 100.0 100.0 JF806499:1353-1805 (Rif)arr3 NA
contig00333 4074 4913 (Sul)sul1 0/0 100.0 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00386 3442 4257 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00625 66 539 (Tmt)dfrA27 0/0 100.0 100.0 EU675686:2543-3016 (Tmt)dfrA27 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00548 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00625 1221 1775 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00823 1 833 aadA16 0/0 98.5 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00625 672 1124 arr-3 0/0 100.0 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00189 5268 6143 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00673 579 1409 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00189 1586 2446 blaTEM-235 0/0 100.0 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00691 89 730 catA2 0/0 100.0 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00625 66 539 dfrA27 0/0 100.0 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00445 3281 3666 fosA_gen 0/0 91.9 93.5 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00092 10265 11440 oqxA6 0/0 100.0 96.3 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00092 7089 10241 oqxB9 0/0 100.0 99.2 NG_050458.1 multidrug efflux RND transporter permease subunit OqxB9 PHENICOL, QUINOLONE
contig00333 19 663 qnrB6 0/0 100.0 99.8 NG_050523.1 quinolone resistance pentapeptide repeat protein QnrB6 QUINOLONE
contig00333 4074 4913 sul1 0/0 100.0 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00386 3442 4257 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00548 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00625 1221 1775 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00823 1 833 aadA16 0/0 98.5 100.0 NG_047339.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 STREPTOMYCIN
contig00625 672 1124 arr-3 0/0 100.0 100.0 NG_048581.1 NAD(+)–rifampin ADP-ribosyltransferase Arr-3 RIFAMYCIN
contig00189 5268 6143 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00673 579 1409 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00189 1586 2446 blaTEM-235 0/0 100.0 99.9 NG_059898.1 class A beta-lactamase TEM-235 BETA-LACTAM
contig00691 89 730 catA2 0/0 100.0 100.0 NG_047596.1 type A-2 chloramphenicol O-acetyltransferase CatII CHLORAMPHENICOL
contig00625 66 539 dfrA27 0/0 100.0 100.0 NG_047723.1 trimethoprim-resistant dihydrofolate reductase DfrA27 TRIMETHOPRIM
contig00445 3281 3666 fosA_gen 0/0 91.9 93.5 NG_047881.1 FosA family fosfomycin resistance glutathione transferase FOSFOMYCIN
contig00092 10265 11440 oqxA6 0/0 100.0 96.3 NG_050424.1 multidrug efflux RND transporter periplasmic adaptor subunit OqxA6 PHENICOL, QUINOLONE
contig00092 7089 10241 oqxB9 0/0 100.0 99.2 NG_050458.1 multidrug efflux RND transporter permease subunit OqxB9 PHENICOL, QUINOLONE
contig00333 19 663 qnrB6 0/0 100.0 99.8 NG_050523.1 quinolone resistance pentapeptide repeat protein QnrB6 QUINOLONE
contig00333 4074 4913 sul1 0/0 100.0 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00386 3442 4257 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE


Summary figures

Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample

Select the database
Resfinder
CARD
ARG-ANNOT
NCBI
MEGARES


Back to index

Plasmid Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select sample

ID014CT
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00297 755 1314 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00132 7365 8129 IncY_1 0/0 100 99.5 K02380 IncY_1__K02380
ID025
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00035 11235 11344 Col440I_1 0/0 96.5 93.6 CP023920.1 Col440I_1__CP023920.1
contig00137 1475 2034 IncFIB(K)_1_Kpn3 0/0 100.0 91.4 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00040 3401 4165 IncY_1 0/0 100.0 99.5 K02380 IncY_1__K02380
ID037
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00286 2903 3289 IncFIA(HI1)_1_HI1 0/0 99.7 98.5 AF250878 IncFIA(HI1)_1_HI1_AF250878
contig00126 7720 8279 IncFIB(K)_1_Kpn3 0/0 100.0 100.0 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00106 3629 3879 IncR_1 0/0 100.0 100.0 DQ449578 IncR_1__DQ449578
ID06CT
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00390 1777 1961 Col(IRGK)_1 1/1 100 98.4 AY543071 Col(IRGK)_1__AY543071
contig00075 6109 6668 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00003 16429 16988 IncFIB(pKPHS1)_1_pKPHS1 0/0 100 98.8 CP003223 IncFIB(pKPHS1)_1_pKPHS1_CP003223
ID08CT
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00336 777 1163 IncFIA(HI1)_1_HI1 0/0 99.7 98.5 AF250878 IncFIA(HI1)_1_HI1_AF250878
contig00101 3306 3865 IncFIB(K)_1_Kpn3 0/0 100.0 100.0 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00144 5035 5285 IncR_1 0/0 100.0 100.0 DQ449578 IncR_1__DQ449578
ID125
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00250 2081 2640 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00001 35569 36007 IncFIB(Mar)_1_pNDM-Mar 0/0 100 100.0 JN420336 IncFIB(Mar)_1_pNDM-Mar_JN420336
ID135
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00140 5278 5837 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00017 35438 35876 IncFIB(Mar)_1_pNDM-Mar 0/0 100 100.0 JN420336 IncFIB(Mar)_1_pNDM-Mar_JN420336
contig00116 8635 8885 IncR_1 0/0 100 100.0 DQ449578 IncR_1__DQ449578
ID149
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00137 1798 2440 IncFIB(pB171)_1_pB171 0/0 100 91.5 AB024946 IncFIB(pB171)_1_pB171_AB024946
contig00116 3801 4030 IncFII(Yp)_1_Yersenia 0/0 100 99.6 CP000670 IncFII(Yp)_1_Yersenia_CP000670
ID152
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00150 1798 2440 IncFIB(pB171)_1_pB171 0/0 100 91.5 AB024946 IncFIB(pB171)_1_pB171_AB024946
contig00129 3779 4008 IncFII(Yp)_1_Yersenia 0/0 100 99.6 CP000670 IncFII(Yp)_1_Yersenia_CP000670
ID163I
Contig Start End Gene Gaps Coverage Identity Accession Product
contig01418 343 496 Col156_1 0/0 100 98.7 NC_009781 Col156_1__NC_009781
contig00261 3353 3912 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
ID187CT
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00237 3638 4197 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
ID188
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00174 7254 7363 Col440I_1 0/0 96.5 95.5 CP023920.1 Col440I_1__CP023920.1
contig00162 5141 5700 IncFIB(K)_1_Kpn3 0/0 100.0 92.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00158 8427 8996 IncHI1B_1_pNDM-MAR 0/0 100.0 99.8 JN420336 IncHI1B_1_pNDM-MAR_JN420336
contig00105 2158 2922 IncY_1 0/0 100.0 99.5 K02380 IncY_1__K02380
ID198
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00046 12532 13091 IncFIB(K)_1_Kpn3 0/0 100 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00014 3886 4146 IncFII_1 0/0 100 100.0 AY458016 IncFII_1__AY458016
ID260
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00036 30264 30823 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00130 3397 4161 IncY_1 0/0 100 99.5 K02380 IncY_1__K02380
ORTHO042EI
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00187 1798 2440 IncFIB(pB171)_1_pB171 0/0 100 91.5 AB024946 IncFIB(pB171)_1_pB171_AB024946
contig00155 3732 3961 IncFII(Yp)_1_Yersenia 0/0 100 99.6 CP000670 IncFII(Yp)_1_Yersenia_CP000670
ORTHO053E
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00014 42043 42602 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00116 8871 9121 IncR_1 0/0 100 99.6 DQ449578 IncR_1__DQ449578
contig00110 2166 2930 IncY_1 0/0 100 99.5 K02380 IncY_1__K02380
ORTHO066E
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00035 23711 24270 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00667 1798 2440 IncFIB(pB171)_1_pB171 0/0 100 91.5 AB024946 IncFIB(pB171)_1_pB171_AB024946
contig00523 3770 3999 IncFII(Yp)_1_Yersenia 0/0 100 99.6 CP000670 IncFII(Yp)_1_Yersenia_CP000670
contig00496 669 919 IncR_1 0/0 100 99.6 DQ449578 IncR_1__DQ449578
contig00259 767 1531 IncY_1 0/0 100 99.5 K02380 IncY_1__K02380
ORTHO067E
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00331 2550 2663 Col440I_1 0/0 100 94.7 CP023920.1 Col440I_1__CP023920.1
contig00002 33393 33952 IncFIB(pKPHS1)_1_pKPHS1 0/0 100 98.4 CP003223 IncFIB(pKPHS1)_1_pKPHS1_CP003223
contig00018 11376 11626 IncR_1 0/0 100 99.2 DQ449578 IncR_1__DQ449578
ORTHO08HWII
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00279 2367 2926 IncFIB(K)_1_Kpn3 0/0 100 91.1 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00055 16500 16938 IncFIB(Mar)_1_pNDM-Mar 0/0 100 100.0 JN420336 IncFIB(Mar)_1_pNDM-Mar_JN420336


Back to index

Virulence Factor Determination


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select the sample

ID014CT
Contig Start End Strand Gene Coverage Identity Accession Product
contig00314 2555 3406 + entB 99.3 82.6 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00030 10489 11559 - ompA 100.0 83.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00118 344 1097 - yagV/ecpE 99.7 84.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00118 1023 2666 - yagW/ecpD 100.0 88.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00118 2656 5181 - yagX/ecpC 100.0 86.7 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00118 5207 5875 - yagY/ecpB 100.0 87.9 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00118 5937 6520 - yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00118 6594 7174 - ykgK/ecpR 98.3 86.9 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID025
Contig Start End Strand Gene Coverage Identity Accession Product
contig00048 6332 7384 - ompA 100.0 85.3 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00759 122 1580 - yagW/ecpD 88.8 89.4 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00514 1230 1813 + yagZ/ecpA 99.3 89.6 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00514 575 1155 + ykgK/ecpR 98.3 87.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID037
Contig Start End Strand Gene Coverage Identity Accession Product
contig00457 1427 2172 + entA 99.2 80.2 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00457 566 1417 + entB 99.2 82.2 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00532 162 933 + fepC 94.6 80.6 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00008 7934 9955 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00054 5154 11261 - irp2 100.0 99.8 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00026 10300 11370 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00134 10614 11367 + yagV/ecpE 99.7 85.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 9045 10688 + yagW/ecpD 100.0 88.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 6530 9055 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 5836 6504 + yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 5190 5773 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00054 11452 12411 - ybtA 100.0 99.9 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00008 6226 7803 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00054 12578 14380 + ybtP 100.0 99.7 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00054 14367 16169 + ybtQ 100.0 99.9 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00054 17470 18774 + ybtS 100.0 97.5 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00008 5419 6222 + ybtT 100.0 99.8 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00008 4322 5422 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00054 16162 17442 + ybtX 100.0 97.7 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00134 4535 5115 + ykgK/ecpR 98.3 86.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID06CT
Contig Start End Strand Gene Coverage Identity Accession Product
contig00094 15312 16057 - entA 99.2 80.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00094 16067 16918 - entB 99.2 82.4 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00450 152 923 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 133171 135192 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 120071 129562 + irp1 100.0 99.8 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 113876 119983 + irp2 100.0 99.7 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 10409 11479 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00145 10635 11388 + yagV/ecpE 99.7 85.5 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 9066 10709 + yagW/ecpD 100.0 88.4 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 6551 9076 + yagX/ecpC 100.0 87.4 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 5857 6525 + yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00145 5212 5795 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 112726 113685 + ybtA 100.0 99.7 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 131463 133040 + ybtE 100.0 99.7 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 110757 112559 - ybtP 100.0 99.5 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 108968 110770 - ybtQ 100.0 99.9 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 106363 107667 - ybtS 100.0 97.6 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 130656 131459 + ybtT 100.0 99.6 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 129559 130659 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 107695 108975 - ybtX 100.0 97.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00145 4557 5137 + ykgK/ecpR 98.3 86.4 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID08CT
Contig Start End Strand Gene Coverage Identity Accession Product
contig00152 4869 5614 + entA 99.2 80.4 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00152 4008 4859 + entB 99.2 81.8 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00343 99 870 + fepC 94.6 81.0 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 194093 196114 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 180993 190484 + irp1 100.0 99.9 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 174798 180905 + irp2 100.0 99.8 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00083 10370 11440 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00141 10752 11505 + yagV/ecpE 99.7 85.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 9183 10826 + yagW/ecpD 100.0 88.8 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 6668 9193 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 5974 6642 + yagY/ecpB 100.0 88.2 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 5328 5911 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 173648 174607 + ybtA 100.0 99.8 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 192385 193962 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 171679 173481 - ybtP 100.0 99.7 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 169890 171692 - ybtQ 100.0 99.9 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 167285 168589 - ybtS 100.0 97.6 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 191578 192381 + ybtT 100.0 99.8 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 190481 191581 + ybtU 100.0 99.7 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 168617 169897 - ybtX 100.0 97.7 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00141 4673 5253 + ykgK/ecpR 98.3 86.2 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID125
Contig Start End Strand Gene Coverage Identity Accession Product
contig00076 15253 15998 - entA 99.2 80.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00076 16008 16859 - entB 99.2 82.4 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00420 117 888 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 33135 35156 + fyuA 100.0 99.8 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 20035 29526 + irp1 100.0 99.8 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 13840 19947 + irp2 100.0 99.8 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00006 18114 19184 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00151 10593 11346 + yagV/ecpE 99.7 85.5 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00151 9024 10667 + yagW/ecpD 100.0 88.4 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00151 6509 9034 + yagX/ecpC 100.0 87.4 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00151 5815 6483 + yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00151 5170 5753 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00012 12690 13649 + ybtA 100.0 99.8 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 31427 33004 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 10721 12523 - ybtP 100.0 99.8 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 8932 10734 - ybtQ 100.0 99.9 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 6327 7631 - ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 30620 31423 + ybtT 100.0 99.6 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 29523 30623 + ybtU 100.0 100.0 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00012 7659 8939 - ybtX 100.0 99.9 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00151 4515 5095 + ykgK/ecpR 98.3 86.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID135
Contig Start End Strand Gene Coverage Identity Accession Product
contig00154 5020 5765 + entA 99.2 80.7 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00154 4159 5010 + entB 99.2 82.4 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00290 131 902 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 18017 19087 + ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00082 530 1283 - yagV/ecpE 99.7 85.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00082 1209 2852 - yagW/ecpD 100.0 88.6 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00082 2842 5367 - yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00082 5393 6061 - yagY/ecpB 100.0 87.7 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00082 6125 6708 - yagZ/ecpA 99.3 90.4 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00082 6783 7363 - ykgK/ecpR 98.3 86.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID149
Contig Start End Strand Gene Coverage Identity Accession Product
contig00182 485 599 + astA 98.3 91.3 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig00009 6207 7040 - csgG 100.0 81.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00002 15401 15937 - lpfA 100.0 89.2 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00002 14617 15315 - lpfB 100.0 89.1 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00002 12066 14594 - lpfC 100.0 90.1 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00002 10439 10966 - lpfE 100.0 83.3 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00006 36444 37489 + ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID152
Contig Start End Strand Gene Coverage Identity Accession Product
contig00194 485 599 + astA 98.3 91.3 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig00006 6197 7030 - csgG 100.0 81.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00012 15989 16525 - lpfA 100.0 89.2 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00012 15205 15903 - lpfB 100.0 89.1 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00012 12654 15182 - lpfC 100.0 90.1 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00012 11027 11554 - lpfE 100.0 83.3 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00022 36444 37489 + ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID163I
Contig Start End Strand Gene Coverage Identity Accession Product
contig00967 91 279 + afaF-VII 100.0 97.9 AAK16195 (afaF-VII) AfaF-VII [Afimbrial adhesin AfaE-VIII (AI015)] [Escherichia coli str. 239 KH 89]
contig00954 1 1319 + aslA 92.3 93.4 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00860 511 627 + astA 100.0 95.7 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig02084 739 855 + astA 100.0 100.0 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig02186 606 1061 - csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig01497 622 1272 + csgD 100.0 81.1 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig01306 153 986 + csgG 100.0 83.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00099 7122 7868 - entA 100.0 95.7 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00099 7868 8725 - entB 100.0 98.1 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00784 1644 2495 + entB 99.2 82.3 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00099 10359 11546 - entC 100.0 97.9 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00651 105 875 - entD 100.0 95.2 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00099 8739 10349 - entE 100.0 95.5 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00751 33 3886 + entF 99.3 95.7 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig01590 528 1778 - entS 100.0 95.4 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig01178 3 1919 + espL4 87.7 97.4 NP_290644 (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig01115 1439 2493 + espR1 83.7 94.0 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00063 8562 9854 - espX5 100.0 97.1 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00651 900 3140 - fepA 100.0 96.7 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00804 1046 1861 - fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig01717 160 931 + fepC 94.6 80.2 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00804 2847 3863 - fepD 100.0 96.1 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00804 1858 2850 - fepG 100.0 94.1 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00651 3383 4585 + fes 100.0 96.7 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig02001 423 1034 - fimA 100.0 88.6 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig02510 170 772 + fimB 100.0 97.8 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig02492 250 753 + fimG 100.0 98.4 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig02179 443 982 + fimI 100.0 98.5 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00305 1589 2419 + gspC 100.0 94.7 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00305 2659 4509 + gspD 100.0 96.1 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00305 4509 6002 + gspE 100.0 97.0 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00305 6002 7201 + gspF 100.0 96.0 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00305 7242 7697 + gspG 100.0 95.0 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig01367 1 520 + gspH 97.9 95.6 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig01367 517 888 + gspI 100.0 95.2 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig01367 921 1490 + gspJ 100.0 96.7 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig02600 1 726 + gspL 84.3 97.1 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00194 1244 3031 + iucA 100.0 94.2 NP_755502 (iucA) aerobactin siderophore biosynthesis protein IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00194 3032 3979 + iucB 100.0 95.6 NP_755501 (iucB) aerobactin siderophore biosynthesis protein IucB [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00194 3979 5721 + iucC 100.0 96.0 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00194 5718 7039 + iucD 98.8 96.3 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00194 6977 9278 + iutA 100.0 88.4 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00022 17849 18901 - ompA 100.0 85.5 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00281 4117 5157 - ompA 100.0 98.1 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00111 10939 11692 + yagV/ecpE 99.7 84.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00861 2512 3265 + yagV/ecpE 99.7 97.0 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00111 9370 11013 + yagW/ecpD 100.0 88.6 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00861 945 2588 + yagW/ecpD 100.0 99.0 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00111 6855 9380 + yagX/ecpC 100.0 87.5 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00111 6161 6829 + yagY/ecpB 100.0 86.1 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00625 3110 3778 + yagY/ecpB 100.0 98.1 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00111 5514 6097 + yagZ/ecpA 99.3 89.0 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00625 2465 3052 + yagZ/ecpA 100.0 99.2 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig01261 647 2224 + ybtE 100.0 99.9 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig02277 148 1036 + ybtU 80.7 100.0 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig01339 1018 2279 - ybtX 98.5 99.5 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00111 4859 5439 + ykgK/ecpR 98.3 87.3 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00625 1800 2390 + ykgK/ecpR 100.0 97.0 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID187CT
Contig Start End Strand Gene Coverage Identity Accession Product
contig00091 15257 16002 - entA 99.2 80.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00091 16012 16863 - entB 99.2 82.4 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00417 127 898 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00003 18123 19193 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00147 10546 11299 + yagV/ecpE 99.7 85.5 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00147 8977 10620 + yagW/ecpD 100.0 88.4 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00147 6462 8987 + yagX/ecpC 100.0 87.4 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00147 5768 6436 + yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00147 5123 5706 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00147 4468 5048 + ykgK/ecpR 98.3 86.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID188
Contig Start End Strand Gene Coverage Identity Accession Product
contig00140 4911 5656 + entA 99.3 80.7 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00140 4050 4901 + entB 99.2 82.2 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00308 135 906 + fepC 94.6 81.0 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 18115 19191 - ompA 100.0 83.3 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00131 10824 11577 + yagV/ecpE 99.7 85.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00131 9255 10898 + yagW/ecpD 100.0 88.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00131 6740 9265 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00131 6046 6714 + yagY/ecpB 100.0 87.4 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00131 5400 5983 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00131 4745 5325 + ykgK/ecpR 98.3 86.8 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID198
Contig Start End Strand Gene Coverage Identity Accession Product
contig00149 4828 5573 + entA 99.2 80.4 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00149 3967 4818 + entB 99.2 81.8 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00490 135 906 + fepC 94.6 81.0 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00004 28923 30944 + fyuA 100.0 99.9 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 15823 25314 + irp1 100.0 99.8 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 9628 15735 + irp2 100.0 99.7 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00062 10303 11373 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00136 10792 11545 + yagV/ecpE 99.7 85.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00136 9223 10866 + yagW/ecpD 100.0 88.8 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00136 6708 9233 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00136 6014 6682 + yagY/ecpB 100.0 88.2 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00136 5368 5951 + yagZ/ecpA 99.3 89.9 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00004 8478 9437 + ybtA 100.0 99.7 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 27215 28792 + ybtE 100.0 99.7 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 6509 8311 - ybtP 100.0 99.6 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 4720 6522 - ybtQ 100.0 99.9 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 2115 3419 - ybtS 100.0 97.6 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 26408 27211 + ybtT 100.0 99.6 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 25311 26411 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 3447 4727 - ybtX 100.0 97.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00136 4713 5293 + ykgK/ecpR 98.3 86.2 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID260
Contig Start End Strand Gene Coverage Identity Accession Product
contig00252 1026 1877 - entB 99.3 82.6 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00039 10489 11559 - ompA 100.0 83.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00124 360 1113 - yagV/ecpE 99.7 84.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 1039 2682 - yagW/ecpD 100.0 88.2 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 2672 5197 - yagX/ecpC 100.0 86.7 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 5223 5891 - yagY/ecpB 100.0 87.9 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 5953 6536 - yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 6610 7190 - ykgK/ecpR 98.3 86.9 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO042EI
Contig Start End Strand Gene Coverage Identity Accession Product
contig00121 485 599 + astA 98.3 91.3 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig00046 2195 3028 - csgG 100.0 81.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00011 15401 15937 - lpfA 100.0 89.2 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00011 14617 15315 - lpfB 100.0 89.1 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00011 12066 14594 - lpfC 100.0 90.1 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00011 10439 10966 - lpfE 100.0 83.3 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00060 11531 12576 + ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ORTHO053E
Contig Start End Strand Gene Coverage Identity Accession Product
contig00178 5342 6087 - entA 99.6 80.1 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00178 6097 6948 - entB 99.2 82.3 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00382 254 1025 + fepC 94.6 80.2 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00022 17942 19012 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00124 535 1288 - yagV/ecpE 99.7 84.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 1214 2857 - yagW/ecpD 100.0 88.3 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 2847 5372 - yagX/ecpC 100.0 86.8 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 5398 6066 - yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 6128 6711 - yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00124 6785 7365 - ykgK/ecpR 98.3 86.9 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO066E
Contig Start End Strand Gene Coverage Identity Accession Product
contig01202 485 599 + astA 98.3 91.3 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig00023 6152 6985 - csgG 100.0 81.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00996 578 1429 + entB 99.2 82.3 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig01045 208 979 + fepC 94.6 80.2 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00090 15401 15937 - lpfA 100.0 89.2 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00090 14617 15315 - lpfB 100.0 89.1 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00090 12066 14594 - lpfC 100.0 90.1 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00090 10439 10966 - lpfE 100.0 83.3 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00126 1073 2118 + ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00178 8589 9659 - ompA 100.0 83.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00461 360 1113 - yagV/ecpE 99.7 84.2 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00461 1039 2682 - yagW/ecpD 100.0 88.3 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00461 2672 5197 - yagX/ecpC 100.0 86.8 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00461 5223 5891 - yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00461 5953 6536 - yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00624 4000 4580 + ykgK/ecpR 98.3 86.9 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO067E
Contig Start End Strand Gene Coverage Identity Accession Product
contig00395 1851 2702 + entB 99.2 82.0 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00512 159 930 + fepC 94.6 80.7 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00014 18104 19174 - ompA 100.0 83.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00134 10674 11427 + yagV/ecpE 99.7 85.3 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 9105 10748 + yagW/ecpD 100.0 88.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 6590 9115 + yagX/ecpC 100.0 87.3 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 5896 6564 + yagY/ecpB 100.0 87.6 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 5250 5833 + yagZ/ecpA 99.3 90.1 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00134 4595 5175 + ykgK/ecpR 98.3 86.6 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO08HWII
Contig Start End Strand Gene Coverage Identity Accession Product
contig00045 9390 9504 + astA 98.3 88.7 BAA94855 (astA) heat-stable enterotoxin 1 [EAST1 (VF0216)] [Escherichia coli O44:H18 042]
contig00281 4991 5736 + entA 99.6 80.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00281 4130 4981 + entB 99.2 81.6 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00689 79 850 + fepC 94.6 80.8 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00922 174 615 + fimG 87.7 98.4 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00141 10110 10863 + yagV/ecpE 99.7 85.4 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 8541 10184 + yagW/ecpD 100.0 88.8 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 6026 8551 + yagX/ecpC 100.0 87.5 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 5332 6000 + yagY/ecpB 100.0 86.2 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 4687 5270 + yagZ/ecpA 99.3 89.6 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00141 4032 4612 + ykgK/ecpR 98.3 87.4 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]


Back to index

Multi-Locus Sequence Typing (MLST)


Symbol Meaning
~ novel full length allele similar to match
? partial match to known allele
- allele missing


Scheme ST 1 2 3 4 5 6 7
ID014CT kpneumoniae 2478 gapA(18) infB(15) mdh(26) pgi(61) phoE(32) rpoB(20) tonB(312)
ID025 kpneumoniae - gapA(16) infB(24) mdh(21) pgi(27) phoE(47) rpoB(22) tonB(630?)
ID035 kpneumoniae 14 gapA(1) infB(6) mdh(1) pgi(1) phoE(1) rpoB(1) tonB(1)
ID037 kpneumoniae 607 gapA(2) infB(1) mdh(2) pgi(80) phoE(10) rpoB(1) tonB(155)
ID06CT kpneumoniae 17 gapA(2) infB(1) mdh(1) pgi(1) phoE(4) rpoB(4) tonB(4)
ID08CT kpneumoniae 307 gapA(4) infB(1) mdh(2) pgi(52) phoE(1) rpoB(1) tonB(7)
ID125 kpneumoniae 20 gapA(2) infB(3) mdh(1) pgi(1) phoE(4) rpoB(4) tonB(4)
ID125II saureus 8 arcC(3) aroE(3) glpF(1) gmk(1) pta(4) tpi(4) yqiL(3)
ID135 kpneumoniae 495 gapA(4) infB(1) mdh(1) pgi(1) phoE(9) rpoB(1) tonB(35)
ID149 ecloacae - dnaA(~144) fusA(106) gyrB(~330) leuS(237) pyrG(~298) rplB(12) rpoB(148)
ID151 - -
ID152 ecloacae - dnaA(~144) fusA(106) gyrB(~330) leuS(237) pyrG(~298) rplB(12) rpoB(148)
ID163I ecoli - adk(10) fumC(11) gyrB(4) icd(8) mdh(8) purA(~561) recA(2)
ID187CT kpneumoniae 17 gapA(2) infB(1) mdh(1) pgi(1) phoE(4) rpoB(4) tonB(4)
ID188 kpneumoniae 491 gapA(51) infB(1) mdh(5) pgi(1) phoE(9) rpoB(4) tonB(13)
ID198 kpneumoniae 307 gapA(4) infB(1) mdh(2) pgi(52) phoE(1) rpoB(1) tonB(7)
ID260 kpneumoniae 2478 gapA(18) infB(15) mdh(26) pgi(61) phoE(32) rpoB(20) tonB(312)
ORTHO042EI ecloacae - dnaA(~144) fusA(106) gyrB(~330) leuS(237) pyrG(~298) rplB(12) rpoB(148)
ORTHO053E kpneumoniae - gapA(18) infB(~15) mdh(26) pgi(16) phoE(11) rpoB(13) tonB(~49)
ORTHO066E kpneumoniae - gapA(18) infB(~15) mdh(26) pgi(16) phoE(11) rpoB(13) tonB(622?)
ORTHO067E kpneumoniae 290 gapA(2) infB(1) mdh(1) pgi(37) phoE(10) rpoB(1) tonB(86)
ORTHO08HWII kpneumoniae - gapA(16) infB(18) mdh(21) pgi(27) phoE(57) rpoB(22) tonB(570?)

Back to index

Pangenome Analysis

Pangenome genes summary

Genes Description Number
Core genes (99% <= strains <= 100%) 0
Soft core genes (95% <= strains < 99%) 0
Shell genes (15% <= strains < 95%) 10239
Cloud genes (0% <= strains < 15%) 20516
Total genes (0% <= strains <= 100%) 30755

Schematic representation of genes presence (color) or absence (blank) between samples:


Pangenome tree based on presence/absence of accessory genes representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


Back to index

Pangenome tree based on core genome alignment representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


Back to index

Insertion sequence characterization


Field Description
Region Numeric code given to insertion sequence (IS)
Orientation The orientation of IS position: Either forward (F) or reverse (F)
X-cordinates The left coordinate of the position
Y-coordinates The right coordinate of the position
Gap The distance between the x and y coordinates
CallType Describes whether a position hit is novel (not in reference) or known (in the reference)
LeftGene Locus tag ID of the gene closest to the left side of the IS position
LeftGeneDescription Description of the gene feature from the left side of the IS position. By default this is the product position
RightGene Locus tag ID of the gene closest to the right side of the IS position
RightGeneDescription Description of the gene feature from the right side of the IS position. By default this is the product position


Select the sample

ID014CT
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 3207690 3207722 32 novel* AC565_15655 alpha-ketoglutarate permease AC565_15660 hypothetical protein
ID037
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 F 658027 658037 -10 novel AC565_03205 biofilm formation protein HmsH AC565_03210 LuxR family transcriptional regulator
region_2 R 4961056 4961066 -10 novel AC565_24355 transposase AC565_24355 transposase
ID06CT
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 337664 337665 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_01640 rhamnose:proton symporter
region_1 R -1 3838036 3838037 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_18780 transposase
ID08CT
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 3336381 3336388 7 novel AC565_16285 cysteine desulfurase AC565_16285 cysteine desulfurase
ID125
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 2181963 2181973 -10 novel AC565_10445 nucleoside permease AC565_10445 nucleoside permease
region_2 R 3007014 3007020 6 novel AC565_14605 membrane protein AC565_14605 membrane protein
region_3 R 3672558 3672567 -9 novel AC565_18075 LuxR family transcriptional regulator AC565_18080 amino acid ABC transporter ATP-binding protein
region_4 F 3687366 3687379 13 novel AC565_18160 porin AC565_18160 porin
region_5 F 3752419 3752429 -10 novel AC565_18405 molybdopterin-guanine dinucleotide biosynthesis protein MobB AC565_18405 molybdopterin-guanine dinucleotide biosynthesis protein MobB
ID135
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 F 241180 241684 504 novel* AC565_01180 transposase AC565_01180 transposase
region_2 F 2544586 2545029 443 novel* AC565_12285 transposase AC565_12285 transposase
region_3 F 2832906 2833360 454 novel* AC565_13750 transposase AC565_13750 transposase
region_4 R 3264949 3265407 458 novel* AC565_15950 transposase AC565_15950 transposase
region_5 F 3811651 3812105 454 novel* AC565_18675 transposase AC565_18675 transposase
region_6 F 4995037 4995498 461 novel* AC565_24565 transposase AC565_24565 transposase
ID149
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 1330468 1330469 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_06435 transposase
region_2 R -1 3838397 3838398 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_18780 transposase
region_3 R -1 4777436 4777437 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_23395 ferrous iron transporter B
ID152
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 1330468 1330469 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_06435 transposase
region_2 R -1 3838397 3838398 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_18780 transposase
region_3 R -1 4777443 4777444 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_23395 ferrous iron transporter B
ID163I
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 4088547 4088627 80 novel* AC565_19875 hypothetical protein AC565_19875 hypothetical protein
region_2 R 5429934 5429947 13 novel AC565_26755 hypothetical protein AC565_26760 cellulose biosynthesis protein BcsE
ID188
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 FALSE 2828229 2828230 1 novel AC565_13710 hypothetical protein AC565_13715 hypothetical protein
ID260
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 3207690 3207722 32 novel* AC565_15655 alpha-ketoglutarate permease AC565_15660 hypothetical protein
ORTHO042EI
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 1330435 1330436 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_06435 transposase
region_2 R -1 3838365 3838366 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_18780 transposase
region_3 R -1 4777431 4777432 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_23395 ferrous iron transporter B
ORTHO053E
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 F 2503768 2503776 -8 novel AC565_12130 aldo/keto reductase AC565_12130 aldo/keto reductase
region_2 R 2568682 2568686 -4 novel AC565_12405 methionine-binding protein AC565_12405 methionine-binding protein
region_3 R 3211612 3211679 67 novel* AC565_15660 hypothetical protein AC565_15670 integrase
ORTHO066E
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 F 2503768 2503776 -8 novel AC565_12130 aldo/keto reductase AC565_12130 aldo/keto reductase
region_2 R 2568682 2568686 -4 novel AC565_12405 methionine-binding protein AC565_12405 methionine-binding protein
region_3 R 3211612 3211673 61 novel* AC565_15660 hypothetical protein AC565_15670 integrase
ORTHO067E
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 4777566 4777567 novel AC565_27010 mannosyl-glycoprotein endo-beta-N-acetylglucosamidase AC565_23395 ferrous iron transporter B


Back to index

Citations and Bibliography

If you have used rMAP, please cite:

Sserwadda, I., & Mboowa, G. (2021). rMAP: the Rapid Microbial Analysis Pipeline for ESKAPE bacterial group whole-genome sequence data. Microbial genomics, 7(6), 10.1099/mgen.0.000583. https://doi.org/10.1099/mgen.0.000583


The philosophy of rMAP was built on the foundation of already pre-existing tools. As a token of gratitude to the authors of those numerous tools, please also cite:


Back to index


Back to index